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Molecular BiologyAccess restricted to Stanford unless otherwise noted

  • About life 2007, Springer
    Ingredients of the simplest cells (prokaryotes and the sizes of their contents) -- Bigger cells (eukaryotic cells and their contents) -- Hives of industry (a survey of intermediary metabolism) -- Delights of transport (how the cell's contents are moved around) -- As if standing still (cellular homeostasis and regulatory processes) -- Internal state and gene expression (transcription and its control) -- Sustaining and changing the internal state (the interrelationship between gene expression and the cell's current composition and functional state) -- Responding to the environment (signal processing, gene expression and internal state) -- The living state (a characterization of 'life') -- Stability and change in DNA (how genes can be altered) -- The spice of life (diversity, natural selection and symbiosis) -- Curriculum vitae (an outline history of life on Earth) -- The origin of life (some major ideas and unanswered questions) -- Other worlds (the possibility of extraterrestrial life) -- Intelligent behavior and brains (the biological meaning of "intelligence") -- Human evolution (human intelligence and the question of human uniqueness) -- Cells, brains and computers: towards a characterisation of mind.
  • ADAR proteins : structure and catalytic mechanism /Rena A. Goodman, Mark R. Macbeth and Peter A. Beal --ADAR proteins : double-stranded RNA and Z-DNA binding domains /Pierre Barraud and Frédéric H.-T. Allain --Editing of neurotransmitter receptor and ion channel RNAs in the nervous system /Jennifer L. Hood and Ronald B. Emeson --Modulation of microRNA expression and function by ADARs /Bjorn-Erik Wulff and Kazuko Nishikura --Nuclear editing of mRNA 3'-UTRs /Ling-Ling Chen and Gordon G. Carmichael --Control of ADAR1 editing of hepatitis delta virus RNAs /John L. Casey --Bioinformatic approaches for identification of A-to-I editing sites /Eli Eisenberg --ADARs : viruses and innate immunity /Charles E. Samuel --Role of ADARs in mouse development /Carl R. Walkley, Brian Liddicoat and Jochen C. Hartner --Regulation and functions of ADAR in Drosophila /Simona Paro, Xianghua Li, Mary A. O'Connell and Liam P. Keegan.
  • Adenovirus methods and protocols. 2nd ed. v. 1-2, 2006., Springer Protocols
    v. 2, 2006 Springer Protocols
    v. 1. Adenoviruses, ad vectors, quantitation, and animal models -- v. 2. Ad proteins and RNA, lifecycle and host interactions, and phylogenetics.
  • Adhesion molecules 2010, CRCnetBASE
    Adhesion molecules are a family of proteins located on the cell surface and are involved in cell-to-cell or cell-extracellular matrix binding. They have a role in maintaining the cellular integrity of tissues and the functional viability of organs. In many diseases the normative features of adhesion molecules are perturbed. Thus, understanding how adhesion molecules behave in health and disease is a key step in the advancement of science and health in general. In the first part of the hook, chapters cover the structure and classification of adhesion molecules, immunohistochemical localization, junctional and inflammatory adhesion molecules and molecular imaging. The other four parts of the book cover adhesion molecules in relation to signalling pathways, gene expression, arginine, stem cells, neutrophil migration, leukocytes, decompression sickness, ischemia reperfusion injury, diabetes, obesity, metabolic syndrome, weight loss, hypoxia, kidney disease, smoking, osteoprotegerin, tumors, biointormatics, high-throughput technologies, chemotherapy, hematopoiesis, lipoproteins, fatty acids, atrial fibrillation and heart disease, brain and dementia. The book is an essential book for research scientists, pathologists, molecular biologists, biochemists or cellular biochemists, clinicians, health care professionals, general practitioners as well as those interested in disease in general.
  • Adhesion molecules 2007, Springer
  • Adhesion-GPCRs 2010, Springer
    The adhesion GPCRs : gene repertoire, phylogeny, and evolution / Helgi B. Schith, Karl J.V. Nordstrom, and Robert Fredriksson -- Cadherins : developmental roles and future challenges / Caroline J. Formstone -- Latrophilin signalling in tissue polarity and morphogenesis / Tobias Langenhan and Andreas P. Russ -- GPS proteolytic cleavage of adhesion-GPCRs / Hsi-Hsien Lin ... [et al.] -- The latrophilins : "split-personality" receptors / John-Paul Silva and Yuri A. Ushkaryov -- Studies on the very large G protein-coupled-receptor : from initial discovery to determining its role in sensorineural deafness in higher animals / D. Randy McMillan and Perrin C. White -- Adhesion-GPCRs in the CNS / Natalie Strokes and Xianhua Piao -- GPR56 interacts with extracellular matrix and regulates cancer progression / Lei Xu -- Adhesion-GPCRs in tumorigenesis / Gabriela Aust -- Immunity and adhesion-GPCRs / Simon Yona, Hsi-Hsien Lin, and Martin Stacey -- CD97 in leukocyte trafficking / Jorg Hamann ... [et al.] -- The role of CD97 in regulating adaptive T-cell responses / Ian Spendlove and Ruhcha Sutavani -- F4/80 : the macrophage specific adhesion-GPCR and its role in immunoregulation / Hsi-Hsien Lin ... [et al.] -- Signal transduction mediated through adhesion-GPCRs / Norikazu Mizuno and Hiroshi Itoh -- Emerging roles of brain specific angiogenesis inhibitor 1 / Daeho Park and Kodi S. Ravichandran -- Adhesion-GPCRs in the male reproductive tract / Ben Davies and Christiane Kirchhoff.
  • Adipose-derived stem cells 2011, Springer Protocols
    Isolation and culture of rhesus adipose-derived stem cells -- Isolation of human adipose-derived stem cells from lipoaspirates -- Isolation of murine adipose-derived stem cells -- In vitro adult rat adipose tissue-derived stromal cell isolation and differentiation -- In vitro adult canine adipose tissue-derived stromal cell growth characteristics -- Adipogenic differentiation of adult equine mesenchymal stromal cells -- Isolation and culture of porcine adipose tissue-derived somatic stem cells -- Automated isolation and processing of adipose-derived stem and regenerative cells -- Methods for the purification and characterization of human adipose-derived stem cells -- Characterization of human adipose-derived stem cells using flow cytometry -- Evaluation of cellular and humoral immune responses to allogeneic adipose-derived stem/stromal cells -- Adipose-derived stromal cells: Cytokine expression and immune cell contaminants -- Gel-based and gel-free proteomic technologies -- Adipogenic differentiation of adipose-derived stem cells -- Three-dimensional culture systems to induce chondrogenesis of adipose-derived stem cells -- Neural differentiation of human adipose tissue-derived stem cells -- Osteogenic differentiation strategies for adipose-derived mesenchymal stem cells -- Generation of adipose stromal cell-derived hepatic cells -- Adipose stem cell differentiation into smooth muscle cells -- Endothelial and cardiac regeneration from adipose tissues -- Epithelial differentiation of human adipose-derived stem cells -- Screening for epigenetic target genes that enhance reprogramming using lentiviral-delivered shRNA -- Adipogenic differentiation of human adipose-derived stem cells on 3D silk scaffolds -- A first approach for the production of human adipose tissue-derived stromal cells for therapeutic use -- Viral transduction of adipose-derived stem cells -- Use of adipose-derived stem cells in high-throughput screening to identify modulators of lipogenesis -- Preservation protocols for human adipose tissue-derived adult stem cells -- Soft tissue reconstruction -- Methods for analyzing microRNA expression and function during osteogenic differentiation of human adipose tissue-derived mesenchymal stem cells -- The generation and the manipulation of human multipotent adipose-derived stem cells -- Cell sheet technology for tissue engineering: The self-assembly approach using adipose-derived stromal cells -- Differentiation of adipose-derived stem cells for tendon repair -- Adipose-derived stem cells for skin regeneration -- Adipose-derived stem cells for periodontal tissue regeneration.
  • Genome instability, checkpoints, and the cell cycle. Comparison of DNA replication in Xenopus laevis and simian virus 40 / Maren Oehlmann, Cathal Mahon, and Heinz-Peter Nasheuer. A genetic screen implicates miRNA-372 and miRNA-373 as oncogenes in testicular germ cell tumors / P. Mathijs Voorhoeve ... [et al.] An investigation into 53BP1 complex formation / Kevin C. Roche and Noel F. Lowndes. Short abstracts--session I -- Tumor and microenvironment interactions. Tumor promotion by tumor-associated macrophages / Chiara Porta ... [et al.] The AP-2[alpha] transcription factor regulates tumor cell migration and apoptosis / Francesca Orso ... [et al.] Modulatory actions of neuropeptide Y on prostate cancer growth: role of MAP kinase/ERK 1/2 activation / Massimiliano Ruscica ... [et al.] Short abstracts--session II -- Animal models. The Arf tumor suppressor in acute leukemias: insights from mouse models of Bcr-Abl-induced acute lymphoblastic leukemia / Richard T. Williams and Charles J. Sherr. Short abstracts--session III -- Transcription and epigenetics. Short abstracts--session IV -- High-throughput approaches and imaging. Identification and validation of the anaplastic large cell lymphoma signature / Roberto Piva, Elisa Pellegrino, and Giorgio Inghirami. Cell-cycle inhibitor profiling by high-content analysis / Fabio Gasparri, Antonella Ciavolella, and Arturo Galvani. Short abstracts-session V -- Novel pathways and therapeutic targets. Regulation for nuclear targeting of the Abl tyrosine kinase in response to DNA damage / Kiyotsugu Yoshida. Short abstracts--session VI -- Poster abstracts.
  • Affinity chromatography. 2nd ed. 2008, Springer Protocols
    Affinity chromatography : history, perspectives, limitations, and prospects / Ana Cecília A. Roque and Christopher R. Lowe -- Immobilized metal ion affinity chromatography of native proteins / Adam Charlton and Michael Zachariou -- Affinity precipitation of proteins using metal chelates / Ashok Kumar, Igor Yu. Galaev, and Bo Mattiasson -- Immunoaffinity chromatography / Stuart R. Gallant, Vish Koppaka, and Nick Zecherle -- Dye ligand chromatography / Stuart R. Gallant, Vish Koppaka, and Nick Zecherle -- Purification of proteins using displacement chromatography / Nihal Tugcu -- Rationally designed ligands for use in affinity chromatography : an artificial protein L / Ana Cecília A. Roque and Christopher R. Lowe -- Phage display of peptides in ligand selection for use in affinity chromatography / Joanne L. Casey, Andrew M. Coley, and Michael Foley -- Preparation, analysis, and use of an affinity adsorbent for the purification of GST fusion protein / Gareth M. Forde -- Immobilized metal ion affinity chromatography of histidine-tagged fusion proteins / Adam Charlton and Michael Zachariou -- Methods for the purification of HQ-tagged proteins / Becky Godat ... [et al.] -- Amylose affinity chromatography of maltose-binding protein : purification by both native and novel matrix-assisted dialysis refolding methods / Leonard K. Pattenden and Walter G. Thomas -- Methods for detection of protein-protein and protein-DNA interactions using HaloTag / Marjeta Urh ... [et al.] -- Site-specific cleavage of fusion proteins / Adam Charlton -- The use of TAGZyme for the efficient removal of N-terminal his-tags / José Arnau ... [et al.] -- Affinity processing of cell-containing feeds using monolithic macroporous hydrogels, cryogels / Igor Yu. Galaev and Bo Mattiasson -- Monolithic bioreactors for macromolecules / Mojca Benčina ... [et al.] -- Plasmid DNA purification via the use of a dual affinity protein / Gareth M. Forde -- Affinity chromatography of phosphorylated proteins / Grigoriy S. Tchaga -- Protein separation using immobilized phospholipid chromatography / Tzong-Hsien Lee and Marie-Isabel Aguilar -- Analysis of proteins in solution using affinity capillary electrophoresis / Niels H.H. Heegaard, Christian Schou, and Jesper Østergaard.
  • Agrobacterium protocols. 2nd ed. v. 1-2, 2006., Springer Protocols
    v. 2, 2006 Springer Protocols
  • Alcohol 2008, Springer Protocols
    Acute models of ethanol exposure to mice / Timothy P. Plackett and Elizabeth J. Kovacs -- A voluntary oral-feeding rat model for pathological alcoholic liver injury / George L. Tipoe ... [et al.] -- Intragastric ethanol infusion model in rodents / Hide Tsukamoto, Hasmik Mkrtchyan, and Alla Dynnyk -- A practical method of chronic ethanol administration in mice / Ruth A. Coleman ... [et al.] -- Analysis of ethanol developmental toxicity in zebrafish / Robert L. Tanguay and Mark J. Reimers -- The avian embryo in fetal alcohol research / Susan M. Smith -- Artificial rearing / Hector D. Dominguez and Jennifer D. Thomas -- Intragastric intubation of alcohol during the perinatal period / Sandra J. Kelly and Charles R. Lawrence --Human monocytes, macrophages, and dendritic cells : alcohol treatment methods / Gyongyi Szabo and Pranoti Mandrekar -- Generation and use of primary rat cultures for studies of the effects of ethanol / Amanda Lindke, Barbara Tremper-Wells, and Michael W. Miller -- Development and properties of HepG2 cells that constitutively express CYP2E1 / Defeng Wu and Arthur I. Cederbaum -- Modeling the impact of alcohol on cortical development in a dish : strategies from mapping neural stem cell fate / Rajesh C. Miranda ... [et al.] -- Acetaldehyde-induced barrier disruption and paracellular permeability in Caco-2 cell monolayer / R.K. Rao -- Alcohol-induced oxidative stress in the liver : in vivo measurements / Gavin E. Arteel -- Isolation of Kupffer cells from rats fed chronic ethanol / Megan R. McMullen, Michele T. Pritchard, and Laura E. Nagy -- Dendritic cells in chronic in vivo ethanol exposure models / Kevin L. Legge and Annette J. Schlueter -- Formation and immunological properties of aldehyde-derived protein adducts following alcohol consumption / Geoffrey M. Thiele, Lynell W. Klassen, and Dean J. Tuma -- Assessment of natural killer (NK) and NKT cells in murine spleens and livers / Michael R. Shey and Zuhair K. Ballas --Polyclonal and antigen-specific responses of T cells and T cell subsets / Betty M. Young ... [et al.] -- B-cell studies in chronic ethanol mice / Shilpi Verma ... [et al.] -- Histological analysis of bone / Urszula T. Iwaniec, Thomas J. Wronski, and Russell T. Turner -- Assessing effects of alcohol consumption on protein synthesis in striated muscles / Thomas C. Vary and Charles H. Lang -- Methods to investigate the effects of chronic ethanol on adipocytes / Becky M. Sebastian ... [et al.] -- Proteomic approaches to identify and characterize alterations to the mitochondrial proteome in alcoholic liver disease / Shannon M. Bailey ... [et al.] -- Alcoholic liver disease and the mitochondrial ribosome : methods of analysis / Alan Cahill and Peter Sykora -- Microarray analysis of ethanol-induced changes in gene expression / Robnet T. Kerns and Michael F. Miles.
  • Methods and platforms for the quantification of splice variants' expression /Laurent Bracco ... [et al.] --Pre-mRNA missplicing as a cause of human disease /Tatyana Novoyatleva ... [et al.] --Alternative splicing : therapeutic target and tool /Mariano A. Garcia-Blanco --SR proteins as potential targets for therapy /Johann Soret, Mathieu Gabut, Jamal Tazi --Misregulation of tau alternative splicing in neurodegeneration and dementia /Athena Andreadis --Spinal muscular atrophy and therapeutic prospects /Brunhilde Wirth, Lars Brichta, Eric Hahnen --Misregulation of alternative splicing causes pathogenesis in myotonic dystrophy /N. Muge Kuyumcu-Martinez, Thomas A. Cooper --Redirecting splicing to address dystrophin mutations : molecular by-pass surgery /Stephen D. Wilton, Susan Fletcher --Altered splicing in prelamin A-associated premature aging phenotypes /Annachiara De Sandre-Giovannoli, Nicolas Levy --Splicing modulation as a modifier of the CFTR function /Malka Nissim-Rafinia, Batsheva Kerem.
  • Contemporary Approaches to Alzheimer's Disease and Frontotemporal Dementia / Erik D. Roberson -- Preparing Synthetic Aβ in Different Aggregation States / W. Blaine Stine, Lisa Jungbauer, Chunjiang Yu, Mary Jo LaDu -- Isolation of Low-n Amyloid β-Protein Oligomers from Cultured Cells, CSF, and Brain / Ganesh M. Shankar, Alfred T. Welzel, Jessica M. McDonald, Dennis J. Selkoe, Dominic M. Walsh -- Detecting Aβ*56 Oligomers in Brain Tissues / Mathew A. Sherman, Sylvain E. Lesné -- Assessing Aβ Aggregation State by Atomic Force Microscopy / Justin Legleiter -- Measuring APP Carboxy-Terminal Fragments / Luke A. Esposito -- Detection of APP Intracellular Domain in Brain Tissue / Sanjay W. Pimplikar, Anupama Suryanarayana -- Cell-Based Assays for Regulators of Tau Biology / Umesh K. Jinwal, Chad A. Dickey -- Split GFP Complementation Assay for Quantitative Measurement of Tau Aggregation In Situ / Wanjoo Chun, Geoffrey S. Waldo, Gail V. Johnson -- Apolipoprotein E Expression and Purification / Yvonne Newhouse, Karl H. Weisgraber -- Aβ Toxicity in Primary Cultured Neurons / Adriana Ferreira, Roxana C. Sinjoanu, Alexandra Nicholson, Sara Kleinschmidt -- Manipulation of Gene Expression in the Central Nervous System with Lentiviral Vectors / Binggui Sun, Li Gan -- Selecting a Mouse Model of Alzheimer's Disease / Jeannie Chin -- Monitoring Spatial Learning and Memory in Alzheimer's Disease Mouse Models Using the Morris Water Maze / Kimberly Scearce-Levie -- Step-by-Step In Situ Hybridization Method for Localizing Gene Expression Changes in the Brain / Jorge J. Palop, Erik D. Roberson, Inma Cobos -- Real-Time Visualization of Axonal Transport in Neurons / Yasuko Osakada, Bianxiao Cui -- Quantifying Biomarkers of Cognitive Dysfunction and Neuronal Network Hyperexcitability in Mouse Models of Alzheimer's Disease: Depletion of Calcium-Dependent Proteins and Inhibitory Hippocampal Remodeling / Jorge J. Palop, Lennart Mucke, Erik D. Roberson -- Epigenetic Changes in the Brain: Measuring Global Histone Modifications / Gavin Rumbaugh, Courtney A. Miller.
  • Amyloid proteins 2004, Springer Protocols
  • Advances in biochemistry now allow us to control living systems in ways that were undreamt of a decade ago. This volume guides researchers and students through the full spectrum of experimental protocols used in biochemistry, plant biology and biotechnology.
  • Mechanisms of antisense drug action, an introduction / Stanley T. Crooke ... [et al.] -- The RNase H mechanism / Walt Lima, Hongjiang Wu, and Stanley T. Crooke -- Small RNA silencing pathways / Alla Sigova and Phillip D. Zamore -- Splice switching oligonucleotides as potential therapeutics / Peter Sazani, Maria A. Graziewicz, and Ryszard Kole -- Basic principles of antisense drug discovery / Susan M. Freier and Andrew T. Watt -- The medicinal chemistry of oligonucleotides / Eric E. Swayze and Balkrishen Bhat -- Basic principles of the pharmacokinetics of antisense oligonucleotide drugs / Arthur A. Levin, Rosie Z. Yu, and Richard S. Geary -- Routes and formulations for delivery of antisense oligonucleotides / Gregory E. Hardee, Lloyd G. Tillman, and Richard S. Geary -- Liposomal formulations for nucleic acid delivery / Ian MacLachlan -- Pharmacological properties of 2'-O-methoxyethyl-modified oligonucleotides / C. Frank Bennett -- Pharmacokinetic/pharmacodynamic properties of phosphorothioate 2'-O-(2-methoxyethyl)-modified antisense oligonucleotides in animals and man / Richard S. Geary ... [et al.] -- Toxicologic properties of 2'-O-methoxyethyl chimeric antisense inhibitors in animals and man / Scott P. Henry ... [et al.] -- An overview of the clinical safety experience of first- and second-generation antisense oligonucleotides / T. Jesse Kwoh -- Manufacturing and analytical processes for 2'-O-(2-methoxyethyl)-modified oligonucleotides / Daniel C. Capaldi and Anthony N. Scozzari -- Utilizing chemistry to harness RNA interference pathways for therapeutics : chemically modified siRNAs and antagomirs / Muthiah Manoharan and Kallanthottathil G. Rajeev.Discovery and development of RNAi therapeutics / Antonin R. deFougerolles and John M. Maraganore -- Optimization of second-generation antisense drugs: going beyond generation 2.0 / Brett P. Monia ... [et al.] -- Modulating gene function with peptide nucleic acids (PNA) / Peter E. Nielsen -- Locked nucleic acid / Troels Koch and Henrik Ørum -- Morpholinos / Patrick L. Iversen -- Potential therapeutic applications of antisense oligonucleotides in ophthalmology / Lisa R. Grillone and Scott P. Henry -- Cardiovascular therapeutic applications / Rosanne M. Crooke, Brenda Baker, and Mark Wedel -- Developing antisense drugs for metabolic diseases: a novel therapeutic approach / Sanjay Bhanot -- Inflammatory diseases / Susan A. Gregory and James G. Karras -- Antisense oligonucleotides for the treatment of cancer / Boris A. Hadaschik and Martin E. Gleave -- Targeting neurological disorders with antisense oligonucleotides / Richard A. Smith and Timothy M. Miller -- Mechanisms and therapeutic applications of immune modulatory oligodeoxynucleotide and oligoribonucleotide ligands for toll-like receptors / Jörg Vollmer and Arthur M. Krieg -- Aptamer opportunities and challenges / Charles Wilson.
  • Apoptosis methods and protocols 2004, Springer Protocols
  • Arabidopsis protocols. 2nd ed. 2006, Springer Protocols
    Applications of chemical-inducible expression systems in functional genomics and biotechnology / Jianru Zuo, Peter D. Hare, and Nam H. Chua -- RNA extraction / Huazhong Shi and Ray Bressan -- Target preparation for DNA microarray hybridization / Tong Zhu, Sherman H. Chang, and Pedro Gil -- Statistical issues in microarray data analysis / Willem A. Rensink and Samuel Hazen -- Preparation and quality assessment of rna from cell-specific samples obtained by laser microdissection / Regine Kleber and Julia Kehr -- Protein isolation and 2-D electrophroetic separation / Bernhard Schlesier and Hans-Peter Mock -- Isolation of nuclear proteins / Tomasz T. Calikowski and Iris Meier -- Puification and fractionation of membranes for proteomic analysis / Anne Marmagne ... [et al.] -- Protein microsequencing / Alberto Paradela and Juan Pablo Albar -- Peptide-based phosphoproteomics with immobilized metal ion chromatography / Thomas S. Nohse and Scott C. Peck -- Metabolite profiling in arabidopsis / Oliver Fiehn -- Hormone profiling in arabidopsis / Axel Müller, Petra Düchting, and Elmer W. Weiler.EMS mutagenesis of arabidopsis / YongSig Kim, Karen S. Schumaker, and Jian-Kang Zhu -- Low-resolution mapping of untagged mutations / M. Rosa Ponce ... [et al.] -- Gene identification and cloning by molecular marker mapping / Georg Jander -- High-throughput TILLING for arabidopsis / Bradley J. Till ... [et al.] -- Genotyping and mapping with high-density oligonucleotides arrays / Justin Borewitz -- Forward genetic screening of insertional mutants / Anja Schneider and Dario Leister -- PCR-based screening for insertional mutants / Anna N. Stepanova and Jose M. Alonso -- Cytogenetic analysis of arabidopsis / Martin Lysak, Paul Fransz, and Ingo Schubert -- Using information from public arabidopsis databases to aid research / Margarita García-Hernandez and Leonore Reiser -- In planta agrobacterium-mediated transformation by vacuum infiltration / Brian W. Tague and Joanna Mantis -- Transient expression assay by agroinfiltration of leaves / Min Woo Lee and Yinong Yang -- Runctional analysis of transcription factors by microparticle bombardment / Ida Ruberti, Giovanna Sessa, and Giorgio Morelli -- Transfection assays with protoplasts containing integrated reporter genes / Shiv Tiwari ... [et al.] -- Chloroplast genetic engineering via organogenesis or somatic embryogenesis / Amit Dhingra and Henry Daniell -- [beta]Glucuronidase as reporter gene: advantages and limitations / Kye-Won Kim ... [et al.] -- Use of fluorescent proteins as reporters / Guido Jach -- Luciferase as reporter genes / Megan M. Southern, Paul E. Brown, and Anthony Hall -- Aqueorin as reporter gene / Christoph. Plieth --Growth of plants and preservation of seeds / Luz Rivero-Lepinckas, Deborah Crist, and Randy Scholl -- Prevention and control of pests and diseases / Jenifer Bush, Georg Jander, and Frederick M. Ausubel -- Growth of other species related to Arabidopsis thaliana / Krithika Yogeeswaran and Mikhail Elia Nasrallah -- Grafting / Katherine Bainbridge ... [et al.] -- Synchronization, transformation, and cryopreservation of suspension-cultured cells -- Margit Menges and James A. H. Murray -- Genetic analysis / Maarten Koorneeff, Carlos Alonso-Blanco, and Piet Stam -- QTL analysis / Carlos Alonso-Blanco, Maarten Koornneef, and Johan W. van Ooijen --
  • Avidin-biotin interactions 2008, Springer Protocols
    Preparation of avidin conjugates / Rosaria P. Haugland and Mahesh K. Bhalgat -- Coupling of antibodies with biotin / Rosaria P. Haugland and Wendy W. You -- Optimization of detection and quantification of proteins on membranes in very high and very low abundance using avidin and strptavidin / Sara R. Zwart and Brandon J. Lewis -- Use of the avidin (Imino) biotin system as a general approach to affinity precipitation / Ruth Freitag and Frank Hilbrig -- Capturing biotinylated proteins and peptides by avidin functional affinity electrophoresis / Bao-Shiang Lee ... [et al.] -- Functionality screen of streptavidin mutants by non-denaturing SDS-PAGE using biotin-4-fluorescein / Nicolas Humbert and Thomas R. Ward -- Application of biotin-4-fluorescein in homogeneous fluorescence assays for avidin, streptavidin, and biotin or biotin derivatives / Andreas Ebner ... [et al.] -- quantitative recovery of biotinylated proteins from streptavidin-based affinity chromatography resins / Christoph Rösli ... [et al.] -- High-yield production and purification of recombinant T7-tag mature streptavidin in glucose-stressed E. coli / Nicolas Humbert ... [et al.] -- Endogenous biotin in rat brain : implications for false-positive results with avidin-biotin and streptavidin-biotin techniques / Bruce E. McKay, Michael L. Molineux, and Ray W. Turner -- Pseudo-immunolabelling with the avidin-biotin-peroxidase complex due to the presence of endogenous biotin in the retina / Willem Kamphuis and Jan Klooster -- Use of synthetic peptides for identifying biotinylation sites in human histones / Gabriela Camporeale ... [et al.] -- Detection and quantitation of the activity of DNA methyltransferases using a biotin/avidin microplate assay / Kirsten Liebert and Albert Jeltsch -- Anti-biotin antibodies offer superior organelle-specific labelling of mitochondria over avidin or streptavidin / Elisabeth D. Coene, Michael K. Shaw, and David J. Vaux -- Mammalian lectin as tool in glycochemistry and histochemistry with relevance for diagnostic procedure / Karel Smetana, Jr. and Sabine André -- A multiplex approach to isotyping antigen-specific antibodies using biotinylated antigen/streptavidin-phycoerythrin / Krista McCutcheon -- Biotin-protein bond : instability and structural modification to provide stability for in vivo applications / Donald M. Mock and Anna Bogusiewicz.
  • Bacterial pathogenesis 2008, Springer Protocols
    Isolation and characterization of lipopolysaccharides / Michael A. Apicella -- Proteomic analysis of proteins secreted by Streptococcus pyogenes / Michelle A. Chaussee, Emily J. McDowell, and Michael S. Chaussee -- Proteomic analysis to investigate regulatory networks in Staphylococcus aureus / Susanne Engelmann and Michael Hecker -- Microarray comparative genomic hybridization for the analysis of bacterial population genetics and evolution / Caitriona M. Guinane and J. Ross Fitzgerald -- Detection and inhibition of bacterial cell-cell communication / Scott A. Rice ... [et al.] -- A system for site-specific genetic manipulation of the relapsing fever spirochete Borrelia hermsii / James M. Battisti, Sandra J. Raffel, and Tom G. Schwan -- Transposon mutagenesis of the lyme disease agent Borrelia burgdorferi / Philip E. Stewart and Patricia A. Rosa -- The biofilm exopolysaccharide polysaccharide intercellular adhesin--a molecular and biochemical approach / Cuong Vuong and Michael Otto -- Analysis of Staphylococcus aureus gene expression during PMN phagocytosis / Jovanka M. Voyich, Dan E. Sturdevant, and Frank R. DeLeo -- Examining the vector-host-pathogen interface with quantitative molecular tools / Jason E. Comer, Ellen A. Lorange, and B. Joseph Hinnebusch -- Intracellular localization of Brucella abortus and Francisella tularensis in primary murine macrophages / Jean Celli -- Rate and extent of Helicobacter pylori phagocytosis / Lee-Ann H. Allen -- Culture, isolation, and labeling of Anaplasma phagocytophilum for subsequent infection of human neutrophils / Dori L. Borjesson -- Ultrastructural analysis of bacteria-host cell interactions / David W. Dorward -- Infection of human monocyte-derived macrophages with Coxiella burnetii / Jeffrey G. Shannon and Robert A. Heinzen -- Infection of epithelial cells with Salmonella enterica / Olivia Steele-Mortimer -- Determining the cellular targets of reactive oxygen species in Borrelia burgdorferi / Julie A. Boylan and Frank C. Gherardini -- Bioluminescent imaging of bacterial biofilm infections in vivo / Jagath L. Kadurugamuwa and Kevin P. Francis -- The cotton rat as a model for Staphylococcus aureus nasal colonization in humans : cotton rat S. aureus nasal colonization model / John F. Kokai-Kun -- A non-human primate model of acute group A Streptococcus pharyngitis / Paul Sumby, Anne H. Tart, and James M. Musser -- Target-based antimicrobial drug discovery / Lefa E. Alksne and Paul M. Dunman -- Sequence analysis of the variable number tandem repeat in Staphylococcus aureus protein A gene : spa typing / Barun Mathema, Jose Mediavilla, and Barry N. Kreiswirth.
  • Bacterial physiology 2008, Springer
  • Glycomics: An Overview of the Complex Glycocode / Garima Gupta and Avadhesha Surolia -- Structural Glycomic Approaches to Molecular Recognition Events on Cell Surfaces / Koichi Kato -- ISCSM2011 Chondroitin Sulfate E-type Structure at Tumor Cell Surface Is Involved in Experimental Metastasis / Kazuyuki Sugahara and Shuji Mizumoto -- Chondroitin Sulfate-Specific Novel Hydrolase in Human / Shuhei Yamada -- Identification of Endothelial Cell Surface Carbohydrate-Binding Receptors by Carbohydrate Ligand Mimicry Peptides / Michiko N. Fukuda -- Lysosomal Enzyme Sorting Receptors - Where Did They First Appear in the Animal Kingdom? / Suryanarayanaraju Vegiraju, Suresh Koduru and Siva Kumar Nadimpalli -- Endoplasmic Reticulum-Targeted Bcl-2 Inhibitable Mitochondrial Fragmentation Initiates ER Stress-Induced Cell Death / B. C. Bhavya, Deepa Indira, Mahendra Seervi, Jeena Joseph and Praveen K. Sobhan, et al. -- Interactions Between Caveolin-1 and Sphingolipids, and Their Functional Relevance / Sandro Sonnino, Simona Prioni, Vanna Chigorno and Alessandro Prinetti -- Cell Membrane Repair Pathway Involves Sensing of Dynamics of Caveolae and Caspase-1 / Saumya S. Srivastava and M. V. Krishnasastry -- Angiogenic Response of Endothelial Cells to Fibronectin / V. B. S. Kumar, R. I. Viji, M. S. Kiran and Perumana R. Sudhakaran -- Lactosylceramide Synthase as a Therapeutic Target to Mitigate Multiple Human Diseases in Animal Models / Subroto Chatterjee and Nezar Alsaeedi --Advanced FRET Methodologies: Protein-Lipid Selectivity Detection and Quantification / Fábio Fernandes, Manuel Prieto and Luís M. S. Loura -- Mechanism of GPCR-Directed Autoantibodies in Diseases / Hamiyet Unal, Rajaganapathi Jagannathan and Sadashiva S. Karnik -- Role of Membrane Cholesterol in Leishmanial Infection / Amitabha Chattopadhyay and Md. Jafurulla -- How Intact Is the Basement Membrane? Role of MMPs / S. Asha Nair, Sankar Jagadeeshan, Ramachandran Indu, Perumana R. Sudhakaran and M. R. Pillai -- Apoptosis of Breast Cancer Cells: Modulation of Genes for Glycoconjugate Biosynthesis and Targeted Drug Delivery / Subhash Basu, Rui Ma, Joseph R. Moskal, Manju Basu and Sipra Banerjee -- Altered Expression of Sialidases in Human Cancer / Taeko Miyagi, K. Takahashi, S. Moriya, K. Hata and K. Yamamoto, et al. -- Poly-ADP-Ribosylation of Vascular Endothelial Growth Factor and Its Implications on Angiogenesis / S. Binu, S. J. Soumya, V. B. S. Kumar and Perumana R. Sudhakaran -- Sphingolipid-Binding Domain in the Serotonin1A Receptor / Amitabha Chattopadhyay, Yamuna Devi Paila, Sandeep Shrivastava, Shrish Tiwari and Pushpendra Singh, et al. -- Withanolide D, Carrying the Baton of Indian Rasayana Herb as a Lead Candidate of Antileukemic Agent in Modern Medicine / Susmita Mondal, Saptarshi Roy, Rita Maity, Asish Mallick and Rajender Sangwan, et al. -- Engineered Glucose to Generate a Spectroscopic Probe for Studying Carbohydrate Biology / Ashish Tripathi, Vibha Singh, K. G. Aishwarya, Gopala Krishna Aradhyam and Srinivas Hotha -- Changes in Sialic Acid Content of Jelly Coat in Pesticide-Exposed Frog Eggs and Their Influence on Fertilization / H. P. Gurushankara, S. V. Krishnamurthy and V. Vasudev.
  • Abbreviations and acronyms -- Glossary of terms useful in biochemistry and molecular biology and related disciplines -- Chemicals commonly used in biochemistry and molecular biology and their properties -- A listing of log P values, water solubility, and molecular weight for some selected chemicals -- Protease inhibitors and protease inhibitor cocktails -- List of buffers -- Organic name reactions useful in biochemistry and molecular biology.
  • Biochromatography 2002, CRCnetBASE
    Upstream and downstream steps in biochromatography / Mookambeswaran A. Vijayalakshmi -- Gel filtration / Kjell-Ove Eriksson -- Ion exchange interaction biochromatography / E. Boschetti and P. Girot -- Hydrophobic (interaction) chromatography of proteins / Herbert P. Jennissen -- Conformational behaviour of polypeptides and proteins in reversed phase and lipophilic environments / Milton W. Hearn -- Affinity chromatography / Jaroslava Turková -- Dye ligand affinity chromatography / Robert K. Scopes -- Immobilized synthetic dyes in affinity chromatography / Nikos E. Labrou and Yannis D. Clonis -- Immobilized histidine ligand affinity chromatography / Oliver Pitiot and Mookambeswaran A. Vijayalakshmi -- Immobilized metal-ion affinity chromatography: from phenomenological hallmarks to structure-based molecular insights / Nadir T. Mrabet and Mookambeswaran A. Vijayalakshmi -- Thiophilic interaction chromatography / Sven Oscarsson and Francisco Batista Viera -- Miscellaneous methods in affinity chromatography: Part 1: Boronic acids as selective ligands for affinity chromatography / Xio-Chuan Liu and William H. Scouten -- Miscellaneous methods in affinity chromatography: Part 2: Shielded affinity chromatography in packed bed and expanded bed mode / Igor Yu. Galaev and Bo Mattiasson -- Glycobiology and biochromatography / Henri Debray, Gérard Strecker and Jean Montreuil -- Capillary electrokinetic chromatography / Gargi Choudhary and Csaba Horváth -- Imprinted polymers as tailor-made stationary phases for affinity separation / Karsten Haupt, Peter A.G. Cormack and Klaus Mosbach -- Computer-aided simulation of biochromatography / Nicolas Voute -- Industrial biochromatography: engineering aspects / F.A.P. Garcia, D.M.F. Prazeres and J.M.S. Cabral -- Validation aspects in biochromatography / Charles Lutsch -- Biochromatography and biomedical applications / C. Legallais, Mookambeswaran A. Vijayalakshmi and Ph. Moriniére.
  • Biodynamics 2004, Wiley
    Part I. Introduction to Science, p. 1-2 -- Chapter 1. Ways of Knowing, p. 3-26 -- Chapter 2. Ways of Thinking, p. 27-50 -- Chapter 3. Mechanics- A First Look, p. 51-67 -- Part II. Dynamics, The Fundamentals of Motion, p. 69-70 -- Chapter 4. Measures of Motion, p. 71-95 -- Chapter 5. Energy- The Source of It All, p. 97-127 -- Chapter 6. Linear Physics, p. 129-148 -- Chapter 7. Biomechanics 1- Rectilinear Motion, p. 149-165 -- Chapter 8. Biomechanics 2- Rotational Motion, p. 167-187 -- Part III. Fields- How Complex Systems Move, p. 189-191 -- Chapter 9. Bioelectricity- Signals in the Body, p. 193-227 -- Chapter 10. Molecules and Metabolism- Unseen Causes, p. 229-257 -- Chapter 11. Bioenergetics- The Dynamics of Heat, p. 259-282 -- Chapter 12. Fluids at Rest, p. 283-302 -- Chapter 13. Fluids in Motion, p. 303-331 -- Part IV. Data Analysis- What We Can Learn from Measurements, p. 333-335 -- Chapter 14. Biostatistics 1- When Things Converge, p. 337-362 -- Chapter 15. Biostatistics 2- When Things Diverge, p. 363-382 -- Chapter 16. Biodynamic Time Series 1- Stride Rate Variability, p. 383-396 -- Chapter 17. Biodynamic Time Series 2- Heart Rate Variability, p. 397-408 -- Chapter 18. Biodynamic Time Series 3- Breathing Rate Variability, p. 409-421 -- Epilogue, p. 423-424 -- Part V. Microbiographies- The Scientists Who Made History, p. 425-432.
  • Biological microarrays 2010, Springer Protocols
    RNA and DNA microarrays / S.C. Sealfon and T.T. Chu -- Aptamer arrays / E. Baldrich -- Oligonucleotide microarrays for identification of microbial pathogens and detection of their virulence-associated or drug-resistance determinants / D.V. Volokhov ... [et al.] -- Protein microarrays printed from DNA microarrays / O. Stoevesandt, M. He and M.J. Taussig -- Lithographically defined two- and three-dimensional tissue microarrays / E.W. Gomez and C.M. Nelson -- Ratiometric lectin microarray analysis of the mammalian cell surface glycome / K.L. Hsu ... [et al.] -- Cell microarrays based on hydrogel microstructures for the application to cell-based biosensor / W.G. Koh -- Fabrication of bacteria and virus microarrays based on polymeric capillary force lithography / P.J. Yoo -- 3D polymer scaffold arrays / C.G. Simon, Jr. ... [et al.] -- PDMS microfluidic capillary systems for patterning proteins on surfaces and performing miniaturized immunoassays / M. Pla-Roca and D. Juncker -- Merging photolithography and robotic protein printing to create cellular microarrays / J.Y. Lee and A. Revzin -- Generation of protein and cell microarrays on functionalized surfaces / Y.S. Choi and C.S. Lee -- Microprinting of liver micro-organ for drug metabolism study / R.C. Chang ... [et al.] -- Microcontact printing / Y. Xie and X. Jiang -- Micromolding for the fabrication of biological microarrays / A.L. Galloway ... [et al.] -- Progress report on microstructured surfaces based on chemical vapor deposition / Y. Elkasabi and J. Lahann -- Methods for forming human microvascular tubes in vitro and measuring their macromolecular permeability / G.M. Price and J. Tien -- Microarray bioinformatics / R.P. Loewe and P.J. Nelson
  • Preface xi -- Acknowledgments xiii -- 1 Introduction I -- 1.1 Hybridization 1 -- 1.2 Affymetrix GeneChip Technology 3 -- 1.3 Spotted Arrays 6 -- 1.4 Serial Analysis of Gene Expression (SAGE) 8 -- 1.5 Example: Affymetrix vs. Spotted Arrays 9 -- 1.6 Summary 11 -- 1.7 Further Reading 13 -- 2 Overview of Data Analysis 15 -- 3 Basic Data Analysis 17 -- 3.1 Absolute Measurements 17 -- 3.2 Scaling 18 -- 3.2.1 Example: Linear and Nonlinear Scaling 20 -- 3.3 Detection of Outliers 20 -- 3.4 Fold Change 21 -- 3.5 Significance 22 -- 3.5.1 Nonparametric Tests 24 -- 3.5.2 Correction for Multiple Testing 24 -- 3.5.3 Example I: t-Test and ANOVA 25 -- 3.5.4 Example II: Number of Replicates 26 -- 3.6 Summary 28 -- 3.7 Further Reading 29 -- 4 Visualization by Reduction of Dimensionality 33 -- 4.1 Principal Component Analysis 33 -- 4.2 Example 1: PCA on Small Data Matrix 35 -- 4.3 Example 2: PCA on Real Data 37 -- 4.4 Summary 37 -- 4.5 Further Reading 39 -- 5 Cluster Analysis 41 -- 5.1 Hierarchical Clustering 41 -- 5.2 K-means Clustering 43 -- 5.3 Self-Organizing Maps 44 -- 5.4 Distance Measures 45 -- 5.4.1 Example: Comparison of Distance Measures 47 -- 5.5 Normalization 49 -- 5.6 Visualization of Clusters 50 -- 5.6.1 Example: Visualization of Gene Clusters in -- Bladder Cancer 50 -- 5.7 Summary 50 -- 5.8 Further Reading 52 -- 6 Beyond Cluster Analysis 55 -- 6.1 Function Prediction 55 -- 6.2 Discovery of Regulatory Elements in Promoter -- Regions 56 -- 6.2.1 Example 1: Discovery of Proteasomal Element 57 -- 6.2.2 Example 2: Rediscovery of Mlu Cell Cycle -- Box (MCB) 57 -- 6.3 Integration of data 58 -- 6.4 Summary 59 -- 6.5 Further Reading 59 -- 7 Reverse Engineering of Regulatory Networks 63 -- 7.1 The Time-Series Approach 63 -- 7.2 The Steady-State Approach 64 -- 7.3 Limitations of Network Modeling 65 -- 7.4 Example 1: Steady-State Model 65 -- 7.5 Example 2: Steady-State Model on Real Data 66 -- 7.6 Example 3: Steady-State Model on Real Data 68 -- 7.7 Example 4: Linear Time-Series Model 68 -- 7.8 Further Reading 71 -- 8 Molecular Classifiers 75 -- 8.1 Classification Schemes 76 -- 8.1.1 Nearest Neighbor 76 -- 8.1.2 Neural Networks 76 -- 8.1.3 Support Vector Machine 76 -- 8.2 Example I: Classification of Cancer Subtypes 77 -- 8.3 Example II: Classification of Cancer Subtypes 78 -- 8.4 Summary 79 -- 8.5 Further Reading 79 -- 9 Selection of Genes for Spotting on Arrays 81 -- 9.1 Gene Finding 82 -- 9.2 Selection of Regions Within Genes 82 -- 9.3 Selection of Primers for PCR 83 -- 9.4 Selection of Unique Oligomer Probes 83 -- 9.4.1 Example: Finding PCR Primers for Gene -- AF105374 83 -- 9.5 Experimental Design 84 -- 9.6 Further Reading 84 -- 10 Limitations of Expression Analysis 87 -- 10.1 Relative VersusAbsoluteRNA Quantification 88 -- 10.2 Further Reading 88 -- 11 Genotyping Chips 91 -- 11.1 Example: NeuralNetworksfor GeneChipprediction 91 -- 11.2 Further Reading 93 -- 12 Software Issues and Data Formats 95 -- 12.1 Standardization Efforts 96 -- 12.2 Standard File Format 97 -- 12.2.1 Example: Small Scripts in Awk 97 -- 12.3 Software for Clustering 98 -- 12.3.1 Example: Clustering with ClustArray 99 -- 12.4 Software for Statistical Analysis 99 -- 12.4.1 Example: StatisticalAnalysis with R 99 -- 12.4.2 The affyR Software Package 103 -- 12.4.3 Commercial Statistics Packages 103 -- 12.5 Summary 103 -- 12.6 Further Reading 104 -- 13 Commercial Software Packages 105 -- 14 Bibliography 109 -- Index 123.
  • Regulation of permeability across the blood-brain barrier / Alexander S. Easton -- Drug transporters at brain barriers : expression and regulation by neurological disorders / Tamima Ashraf ... [et al.] -- The blood-retina barrier : tight junctions and barrier modulation / Matthew Campbell and Peter Humphries -- The inner blood-retinal barrier : molecular structure and transport biology / Ken-Ichi Hosoya and Masanori Tachikawa -- Endothelial and epithelial barriers in graft-versus-host disease / Sam C. Nalle and Jerrold R. Turner -- Structure and regulation of intestinal epithelial tight junctions : current concepts and unanswered questions / Andrei I. Ivanov -- Polarity protein complex scribble/Lgl/Dlg and epithelial cell barriers / Wen-Hui Su ... [et al.] -- The blood-biliary barrier, tight junctions, and human liver diseases / Nikki P. Lee -- The blood-follicle barrier (BFB) in disease and in ovarian function / Michelle K.Y. Siu and C. Yan Cheng -- Physiology and pathophysiology of the epithelial barrier of the female reproductive tract : role of ion channels / Hsiao Chang Chan ... [et al.] -- The blood-epididymis barrier and human male fertility / Øvemie Dubø and Daniel G. Cyr -- Blood-tissue barriers : morphofunctional and immunological aspects of the blood-testis and blood-epididymal barriers / Luiz R. França ... [et al.] -- Gap junctions and blood-tissue barriers / Michelle W.M. Li, Dolores D. Mruk, and C. Yan Cheng -- Transcriptional regulation of cell adhesion at the blood-testis barrier and spermatogenesis in the testis / Wing-Yee Lui and C. Yan Cheng -- C-Src and c-Yes are two unlikely partners of spermatogenesis and their roles in blood-testis barrier dynamics / Xiang Xiao ... [et al.] -- Role of P-glycoprotein at the blood-testis barrier on adjudin distribution in the testis : a revisit of recent data / Linlin Su ... [et al.] -- The apical ectoplasmic specialization-blood-testis barrier functional axis is a novel target for male contraception / Ka-Wai Mok ... [et al.].
  • I. Overview. -- Krüppel-like Factors: Ingenious Three Fingers Directing Biology and Pathobiology / Ryozo Nagai, Ichiro Manabe and Toru Suzuki -- II. Molecular Control of Krüppel-like Factor Function. -- Molecular Structures of Krüppel-like Factors / Toshio Nagashima, Fumiaki Hayashi, Takashi Umehara and Shigeyuki Yokoyama -- Krüppel-like Factor Proteins and Chromatin Dynamics / Navtej S. Buttar, Gwen A. Lomberk, Gaurang S. Daftary and Raul A. Urrutia -- Co-regulator Interactions in Krüppel-like Factor Transcriptional Programs / Richard C. M. Pearson, Briony H. A. Jack, Stella H. Y. Lee, Alister P. W. Funnell and Merlin Crossley -- III. Krüppel-like Factors in Development and Differentiation. -- Developmental Expression of Krüppel-like Factors / Yizeng Yang and Jonathan P. Katz -- Expanded Role for EKLF/KLF1 Within the Hematopoietic Lineage / James J. Bieker -- Roles of Krüppel-like Factors in Lymphocytes / Kensuke Takada, Kristin A. Hogquist and Stephen C. Jameson -- Krüppel-like Factors in Gastrointestinal Tract Development and Differentiation / Marie-Pier Tétreault and Jonathan P. Katz -- Gene Interactions Between Krüppel-like Factors in Development / Joyce A. Lloyd -- Krüppel-like Factors in Stem Cell Biology / Masatsugu Ema, Satoru Takahashi and Yoshiaki Fujii-Kuriyama -- IV. Krüppel-like Factors in Organ Function and Disease. -- Krüppel-like Factors and the Liver / Goutham Narla and Scott L. Friedman -- Role of Krüppel-like Factor 15 in Adipocytes / Wataru Ogawa, Hiroshi Sakaue and Masato Kasuga -- Krüppel-like Factors in the Heart / Daiji Kawanami, Saptarsi M. Haldar and Mukesh K. Jain -- Krüppel-like Factors in the Vascular Endothelium / Guillermo García-Cardeña and Guadalupe Villarreal -- Krüppel-like Factors KLF2, KLF4, and KLF5: Central Regulators of Smooth Muscle Function / Christopher W. Moehle and Gary K. Owens -- Krüppel-like Factors in Cancers / Vincent W. Yang -- V. Diagnostic and Therapeutic Applications of Krüppel-like Factors. -- Krüppel-like Factors KLF6 and KLF6-SV1 in the Diagnosis and Treatment of Cancer / Analisa DiFeo, Goutham Narla and John A. Martignetti -- Drug Development and Krüppel-like Factors / Ichiro Manabe and Ryozo Nagai.
  • Biology of serpins. 1st ed. 2011, ScienceDirect
  • Introduction -- Chemistry and structure of dendrimers. Definition of terms and nomenclature ; Sugar code (glyc code) ; Classes of peptide-, glyco, and glycopeptide dendrimers ; The dendritic state and dendritic effects ; Synthesis of dendrimers : convergent and divergent approaches ; Purification and characterization of dendrimers ; Dendrimeric libraries ; Dendrimers in catalysis -- Dendrimers and their biological and therapeutic applications. Dendrimers and solubility ; Biocompability and toxicity of dendrimers ; Dendrimers in nanoscience and nanotechnology ; Dendrimers in drug delivery ; Dendrimers in gene delivery ; Dendrimers and bacteria ; Dendrimers and viruses ; Dendrimers and parasites ; Cancer ; Diagnostics, lectin detection and cell-cell interactions ; Dendrimers as biosensors and imaging tools ; Dendrimers regulating in intracellular signaling pathways ; Vaccines and immunomodulation ; Dendrimers in neurodegenerative diseases ; Conclusions and perspectives. .
  • Identification of fungal pathogenicity genes by Agrobacterium tumefaciens-mediated transformation / Karunakaran Maruthachalam ... [et al.] -- The genetics and molecular biology of carotenoid biosynthesis in mucorales / Catalina Sanz, Mahdi Shahriari, and Arturo P. Eslava -- Induction and repression of carbohydrate degrading enzymes in fungi with special reference to their coding genes / Pauline Walsh, Alan Hernon, and Anthonia O'Donovan -- Involvement of ADH1, IPT1, and PMT genes in Candida albicans pathogenesis / Mahmoud Rouabhia and Mahmoud Ghannoum -- Enhanced resistance to fungal pathogens in plants through selective utilization of useful fungal genes / B.K. Sarma ... [et al.] -- Genes encoding penicillin and cephalosporin biosinthesis in Acremonium chrysogenum : two separate clusters are required for cephalosporin production / Juan-Francisco Martøn, Carlos Garcia-Estrada, and Ricardo V. Ullon -- A review of the fungal B-galactosidase gene and its biotechnological applications / Anne G. Lydon -- Trichoderma genes involved in interactions with fungi and plants / Mala Mukherjee -- Use of luciferases as a tool to analyze fungal physiology in association with gene transcription / David M. Arana and Jess Pla --Fungal genes and their respective enzymes in industrial food, bio-based, and pharma applications / Marco van den Berg ... [et al.] -- Fungal metacaspases : an overview / Anthonia O'Donovan, Finola E. Cliffe, and Mary C. Shier -- Signaling molecules in the Arbuscular mycorrhizal fungi / Mohammad Miransari -- Role of pathogenic genes of Fusarium oxysporum, coding cell wall degrading enzymes during wilt infection in plants / Vijai Kumar Gupta, Maria Tuohy, and A. Manimaran -- Engineering fungal expression systems : recombinant expression of two class I alpha-1, 2-mannosidases from the filamentous fungus Aspergillus nidulans / C. Joshua Eades and William E. Hintz -- PCR-diagnostic of Septoria nodorum berk : aggresivenes in wheat tissue / I.V. Maksimov and A.Sh. Valeev -- Detection of toxigeneic and pathogenic fungi targeting metabolic pathway genes / Venkataramana Mudili ... [et al.] -- Pathogenicity genes in entomopathogenic fungia used as biopesticides / K. Uma Devi ... [et al.].
  • Blood-brain and other neural barriers 2011, Springer Protocols
    Morphology and properties of brain endothelial cells -- Morphology and properties of pericytes -- Morphology and properties of astrocytes -- The blood-cerebrospinal fluid barrier: Structure and functional significance -- The blood-retinal barrier: Structure and functional significance -- The blood-nerve barrier: Structure and functional significance -- Detection of multiple proteins in intracerebral vessels by confocal microscopy -- Multiparametric magnetic resonance imaging and repeated measurements of blood-brain barrier permeability to contrast agents -- Detection of brain pathology by magnetic resonance imaging of iron oxide micro-particles -- Measuring the integrity of the human blood-brain barrier using magnetic resonance imaging -- Assessing blood-cerebrospinal fluid barrier permeability in the rat embryo -- Detection of blood-nerve barrier permeability by magnetic resonance imaging -- Isolation of human brain endothelial cells and characterization of lipid raft-associated proteins by mass spectroscopy -- Analysis of mouse brain microvascular endothelium using laser capture microdissection coupled with proteomics -- Molecular and functional characterization of P-glycoprotein in vitro -- Methods to study glycoproteins at the blood-brain barrier using mass spectrometry -- Novel models for studying the blood-brain and blood-eye barriers in drosophila -- Zebrafish model of the blood-brain barrier: Morphological and permeability studies -- Methods to assess pericyte-endothelial cell interactions in a coculture model -- Isolation and properties of an in vitro human outer blood-retinal barrier model -- Isolation and properties of endothelial cells forming the blood-nerve barrier -- Treatment of focal brain ischemia with viral vector-mediated gene transfer -- Blood-brain barrier disruption in the treatment of brain tumors -- Integrated platform for brain imaging and drug delivery across the blood-brain barrier -- Targeting the choroid plexus-CSF-brain nexus using peptides identified by phage display.
  • Patients with advanced breast or prostate cancers usually develop bone metastases. The principal complications resulting from metastatic bone disease are pain, spinal cord compression, pathologic fractures and bone marrow suppression. Improving the management of bone metastases is crucial to quality of life for patients with breast and prostate cancer. Advances in understanding of the molecular mechanisms underlying the pathophysiology of bone metastasis are driving the development of new therapeutic strategies. The book provides an overview of molecular factors that offer targets and avenues for therapeutic strategies.
  • C. elegans 2006, Springer Protocols
    An overview of C. elegans biology / Kevin Strange -- Comparative genomics in C. elegans, C. briggsae, and other Caenorhabditis species / Avril Coghlan, Jason E. Stajich, and Todd W. Harris -- WormBase: methods for data mining and coparative genomics / Todd W. Harris and Lincoln D. Stein -- C. elegans deletion mutant screening / Robert J. Barstead and Donald G. Moerman -- Insertional mutagenesis in C. elegans using the drosophila transposon Mos1: a method for the rapid identification of mutated genes / Jean-Louis Bessereau -- Single nucleotide polymorphism mapping / M. Wayne Davis and Marc Hammarlund -- Creation of transgenic lines using microparticle bombardment methods / Vida Praitis -- Construction of plasmids for RNA interference and in vitro transcription of double-stranded RNA / Lisa Timmons -- Delivery methods for RNA interference in C. elegans / Lisa Timmons -- Functional genomic approaches in C. elegans / Todd Lamitina -- Assays for toxicity studies in C. elegans with Bt crystal proteins / Larry J. Bischof, Danielle L. Huffman, and Raffi V. Aroian -- Fluorescent reporter methods / Harald Hutter -- Electrophysiological analysis of neuronal and muscle function in C. elegans / Michael M. Francis and Andres Villu Maricq -- Sperm and oocyte isolation methods for biochemical and proteomic analysis / Michael A. Miller -- Preservation of C. elegans tissue via high-pressure freezing and freeze-substitution for ultrastructural analysis and immunocytochemistry / Robby M. Weimer -- Intracellular pH measurements in vivo using green fluorescent protein variants / Keith Nehrke -- Automated imaging of C. elegans behavior / Christopher J. Cronin, Zhaoyang Feng, and William R. Schafer -- Intracellular Ca2+ imaging in C. elegans / Rex A. Kerr and William R. Schafer -- In vitro culture of C. elegans somatic cells / Kevin Strange and Rebecca Morrison -- Techniques for analysis, sorting, and dispensing of C. elegans on the COPAS flow-sorting system / Rock Pulak.
  • Calcium signaling protocols. 2nd ed. 2005, Springer Protocols
    Fluorescent measurement of [Ca²+]c: basic practical considerations / Alec W.M. Simpson -- Measurement of [Ca²+]i in whole cell suspensions using fura-2 / Robert A. Hirst ... [et al.] -- Measurement of [Ca²+]i in cell suspensions using indo-1 / Adriaan Nelemans -- Confocal microscopy: theory and applications for cellular signaling / Stephen C. Tovey, Paul J. Brighton, and Gary B. Willars -- Single-cell and subcellular measurement of intracellular Ca²+ concentration / Anthony J. Morgan and Andrew P. Thomas -- Ratiometric Ca²+ measurements using the FlexStation scanning fluorometer / Ian C.B. Marshall, Izzy Boyfield, and Shaun McNulty -- Measuring Ca²+ changes in multiwell format using the fluorometric imaging plate reader / Ian C.B. Marshall, Davina E. Owen, and Shaun McNulty --Measurement of Ca²+ entry using cells ⁴⁵Ca²+ / Mercedes Villarroya ... [et al.] -- Measurement of [³H]PN200-110 and [¹²⁵I]-conotoxin MVIIA binding / Kazuyoshi Hirota and David G. Lambert -- Whole-cell patch clamp recording of voltage-sensitive Ca²+ channel currents: heterologous expression systems and dissociated brain neurons / Atticus H. Hainsworth, Andrew D. Randall, and Alessandro Stefani -- Measurement of phospholipase C by monitoring inositol phosphates using [³H]inositol-labeling protocols in permeabilized cells / Alison Skippen, Philip Swigart, and Shamshad Cockcroft -- Measurement of inositol(1,4,5)triphosphate using a stereospecific radioreceptor mass assay / Darren Smart --Measurement of calcium fluxes in permeabilized cells using a ⁴⁵Ca²+ uptake and release assay / Robert A. Wilcox -- Microinjection of myo-inositol(1,4,5)trisphosphate and other calcium-mobilizing agents into intact adherent cells / Robert A. Wilcox, Ian D. Forsythe, and Terence J. McCann -- Measurement of free [Ca²+] changes in agonist-sensitive internal stores using compartmentalized fluorescent indicators / Aldebaran M. Hofer -- Measurement of [Ca²+]i in smooth muscle strips using front-surface fluorimetry / Hideo Kanaide -- Measurement of calcium and movement in heart cells / Leong L. Ng and Paulene A. Quinn --Simultaneous analysis of intracellular pH and Ca²+ from cell populations / Raul Martinez-Zaguilan ... [et al.] -- Measurement of cytosolic-free Ca²+ in plant tissue / Martin R. McAinsh and Carl K.-Y. Ng -- Assay and purification of calmodulin-dependent protein kinase / Rajendra K. Sharma -- Assay and purification of calmodulin-dependent cyclic nucleotide phosphodiesterase and isozyme separation / Rajendra K. Sharma -- Measurement of Ca²+-ATPase activity (in PMCA and SERCA1) / Danuta Kosk-Kosicka.
  • Chapter 1. Scientific notation and metric prefixes -- Chapter 2. Solutions, mixtures, and media -- Chapter 3. Cell growth -- Chapter 4. Working with bacteriophages -- Chapter 5. Nucleic acid quantification -- Chapter 6. Labeling nucleic acids with radioisotopes -- Chapter 7. Oligonucleotide synthesis -- Chapter 8. The polymerase chain reaction (PCR) -- Chapter 9. The real-time polymerase chain reaction (RT-PCR) -- Chapter 10. Recombinant DNA -- Chapter 11. Protein -- Chapter 12. Centrifugation -- Chapter 13. Forensics and paternity.
  • Candida albicans 2009, Springer Protocols
    Isolation of dendritic cells from human blood for in vitro interaction studies with fungal antigens / T. Sreevalsan -- Detection and quantitation of antifungal SIgA antibodies in body fluids / Michael F. Cole -- Phagocytosis and killing assays for Candida species / Chen Du and Richard A. Calderone -- Immunization protocols for use in animal models of candidiasis / Esther Segal and Hana Sandovsky-Losica -- Penetration of antifungal agents through Candida biofilms / L. Julia Douglas -- Candida biofilm analysis in the artificial throat using FISH / Bastiaan P. Krom ... [et al.] -- Conditions for optimal Candida biofilm development in microtiter plates / Bastiaan P. Krom ... [et al.] -- Animal models of candidiasis / Cornelius J. Clancy, Shaoji Cheng, and Minh H. Nguyen -- Candida albicans gene expression in an in vivo infection model / Michael D. Kruppa -- In vitro and ex vivo assays of virulence in Candida albicans / Richard A. Calderone -- Biotyping of Candida albicans and other fungi by yeast killer toxins sensitivity / Luciano Polonelli and Stephania Conti -- DNA fingerprinting Candida species / Claude Pujol and David R. Soll -- The application of tandem-affinity purification to Candida albicans / Chris Blackwell and Jeremy D. Brown -- Preparation of samples for proteomic analysis of the Candida albicans cell wall / Neeraj Chauhan -- Reporter gene assays in Candida albicans / Joy Sturtevant -- Genetic transformation of Candida albicans / Ana M. Ramon and William A. Fonzi -- Large-scale gene disruption using the UAU1 cassette / Clarissa J. Nobile and Aaaron P. Mitchell -- Standard growth media and common techniques for use with Candida albicans / Neeraj Chauhan and Michael D. Kruppa.
  • Capillary electrophoresis 2008, Springer Protocols
    Part I: Analyte-oriented -- Determination of small icons with capillary electrophoresis and contactless conductivity detection / Andreas Zemann, Irene Rohregger, and Roland Zitturi -- Metal analysis with capillary zone electrophoresis / Ashok Kumar Malik - Measurement of low-molecular-weight carboxylic acids in ambient air and vehicle emission by capillary electrophoresis / Ewa Dabek-Zlotorzynska and Valbona Celo -- Determination of aliphatic low-molecular-weight and biogenic amines by capillary zone electrophoresis / Agnes Fekete ... [et al.] -- Capillary electrophoretic analysis of organic pollutants / Ashok Kumar Malik, Jatinder Singh Aulakh, and Varinder Kaur -- Capillary electrophoresis with laser-induced fluorescence: environmental applications / Lee Riddick and William C. Brumley -- Practical considerations for the analysis of ionic and neutral organic molecules with capillary electrophoresis/mass spectrometry / Moritz Frommberger, Matthias Englmann, and Philippe Schmitt-Kopplin -- Analysis of the enantiomers of chiral pesticides and other pollutants in environmental samples by capillary electrophoresis / Arthur W. Garrison, Philippe Schmitt-Kopplin, and Jimmy K. Avants -- Capillary electrophoresis of tropane alkaloids and glycoalkaloids occurring in solanaceae plants / Tommaso R. I. Cataldi and Giuliana Bianco -- Capillary electrophoresis for pharmaceutical analysis / Alex Marsh ... [et al.] -- Capillary electrophoresis of neutral carbohydrates: mono-, oligosaccharides, and glucosides / Cristiana Campa and Marco Rossi -- Capillary electrophoresis of sugar acids / Cristiana Campa, Edi Baiutti, and Anna Flamigni -- Use of capillary electrophoresis for polysaccharide studies and applications / Amelia Gamini ... [et al.] -- Analysis of oligonucleotides using capillary zone electrophoresis and electrospray mass spectrometry / An Willems, Dieter L. Deforce, and Jan Van Bocxlaer -- Separation of DNA by capillary electrophoresis / Bruce McCord, Brittany Hartzell-Baguley, and Stephanie King -- Capillary electrophoresis of oxidative DNA damage / Guowang Xu ... [et al.] -- Capillary electrophoresis of gene mutation / Guowang Xu ... [et al.] -- Biomedical applications of amino acid detection by capillary electrophoresis / Giuseppe E. De Benedetto -- Separation of peptides by capillary electrophoresis / Gerhard K. E. Scriba and Arndt Psurek -- Analysis of proteins by capillary electrophoresis / Christian W. Huck and Günther K. Bonn -- Separation of synthetic (Co)polymers by capillary electrophoresis techniques / Hervé Cottet and Pierre Gareil -- Capillary electrophoresis separation of microorganisms / Bartolomé M. Simonet, Angel Ríos, and Miguel Valcárcel -- Part II: Methods-oriented -- A semi-empirical approach for a rapid comprehensive evaluation of the electrophoretic behaviors of small molecules in free-zone electrophoresis / Philippe Schmitt-Kopplin and Agnes Fekete -- The CE way of thinking: all is relative! / Philippe Schmitt-Kopplin and Agnes Fekete -- Adsorbed cationic polymer coatings for enhanced capillary electrophoresis/mass spectrometry of proteins / Sara Ullsten, Aida Zuberovic, and Jonas Bergquist -- On-column ligand/receptor derivatization coupled to affinity capillary electrophoresis / Jose Zavaleta ... [et al.] -- On-line concentration of environmental pollutant samples by using capillary electrophoresis / Janpen Intaraprasert and Philip J. Marriott -- Free-flow electrophoresis system for proteomics applications / Gerhard Weber and Robert Wildgruber -- Microemulsion electrokinetic chromatography / Wolfgang W. Buchberger -- Micellar electrokinetic chromatography of aminoglycosides / Ulrike Holzgrabe, Stefanie Laug, and Frank Wienen -- Capillary electrochromatography and on-line concentration / Guichen Ping ... [et al.] -- Analysis of alkaloids in single plant cells by capillary electrophoresis / Katrin Wieland, Björn Thiele, and Uli Schurr -- Multi-dimensional capillary electrophoresis and chromatography for proteomic analysis / Mingxia Gao and Xiangmin Zhang.
  • Frontal analysis continuous capillary electrophoresis for protein-polyelectrolyte binding studies / Emek Seyrek, Toshiaki Hattori, and Paul L. Dubin -- Analysis of proteins by CE, CIEF, and microfluidic devices with whole column imaging detection / Jiaqi Wu ... [et al.] -- Capillary electrophoresis-electrospray ionization mass spectrometry of amino acids, peptides, and proteins / Mehdi Moini -- Capillary isoelectric focusing-mass spectrometry of proteins and protein complexes / Suzana Martinović, Ljiljana Paša-Tolić, and Richard D. Smith -- Integrated system for rapid proteomics analyses using microfluidics devices coupled to nanoelectrospray mass spectrometry / Jianjun Li ... [et al.].Surfactant based methods for prevention of protein adsorption in capillary electrophoresis / Charles A. Lucy, Nicole E. Baryla, and Ken K.-C. Yeung -- Capillary coating for protein separation based on Si-O and Si-C covalent bond formation for capillary electrophoresis with laser-induced fluorescence detection / Hossein Ahmadzadeh, Norman J. Dovichi, and Sergey Krylov -- On-column labeling reaction for the analysis of protein contents of a single cell using capillary electrophoresis with laser-induced fluorescence detection / Hossein Ahmadzadeh and Sergey Krylov -- Covalent and noncovalent labeling schemes for near-infrared dyes in capillary electrophoresis protein applications / John Sowell ... [et al.] -- Capillary electrophoresis in the analysis and monitoring of biotechnological processes / Vadim Klyushnichenko --Capillary electrophoresis of proteins in a quality control environment / David L. Good ... [et al.] -- Analysis of neutral N-linked oligosaccharides from antibodies using free-solution capillary electrophoresis in bare fused silica capillaries / Jeffrey S. Patrick ... [et al.] -- Affinity capillary electrophoresis to examine receptor-ligand interactions / Maryam Azad ... [et al.] -- Screening major binding sites on human serum albumin by affinity capillary electrophoresis / Hee Seung Kim, John Austin, and David S. Hage -- Using charge ladders and capillary electrophoresis to measure the charge, size, and electrostatic interactions of proteins / Upma Sharma and Jeffrey D. Carbeck --
  • Cell engineering v. 1-, 1999-, Springer
  • Cell signaling reactions 2011, Springer
  • Cell-based microarrays 2011, Springer Protocols
    Cell-Based Microarrays: Overview / Ella Palmer -- Cell-Based Co-transfection Microarrays for Use with HEK293T Cells on a Poly d-Lysine-Coated Polystyrene Microplate / Meenal Soni, Fang Lai -- Large-Scale Cell-Based Microarrays and Their Use with HEK293T Cells and Downstream Apoptotic Assays / Ella Palmer, Tom C. Freeman -- A Novel Fluorescent Transcriptional Reporter for Cell-Based Microarray Assays / Tanya M. Redmond, Michael D. Uhler -- High-Throughput Subcellular Protein Localization Using Transfected-Cell Arrays: Subcellular Protein Localization Using Cell Arrays / Yuhui Hu, Michal Janitz -- Cell Arrays for the Measurement of Organelle Dynamics in Living Cells / Holger Erfle, Tautvydas Lisauskas, Christoph Claas, Jürgen Reymann, Vytaute Starkuviene -- High-Throughput Immunofluorescence Microscopy Using Yeast Spheroplast Cell-Based Microarrays / Wei Niu, G. Traver Hart, Edward M. Marcotte -- Cell-Based Microarrays of Infectious Adenovirus Encoding Short Hairpin RNA (shRNA) / Hansjürgen Volkmer, Frank Weise -- Reverse Transfected Cell Microarrays in Infectious Disease Research / Andreas Konrad, Ramona Jochmann, Elisabeth Kuhn, Elisabeth Naschberger, Priya Chudasama, Michael Stürzl -- Transfected Cell Microarrays for the Expression of Membrane-Displayed Single-Chain Antibodies / Baochuan Lin, James B. Delehanty -- Blood Cell Capture on Antibody Microarrays and Monitoring of the Cell Capture Using Surface Plasmon Resonance Imaging / Yoann Roupioz, Sarah Milgram, André Roget, Thierry Livache -- Immobilized Culture and Transfection Microarray of Non-adherent Cells / Satoshi Yamaguchi, Erika Matsunuma, Teruyuki Nagamune -- Plasma Polymer and PEG-Based Coatings for DNA, Protein and Cell Microarrays / Andrew L. Hook, Nicolas H. Voelcker, Helmut Thissen -- Polymer Microarrays for Cellular High-Content Screening / Salvatore Pernagallo, Juan J. Diaz-Mochon -- High-Throughput Analyses of Gene Functions on a Cell Chip by Electroporation / Koichi Kato, Hiroo Iwata -- Microfluidic Image Cytometry / Ken-ichiro Kamei, Jing Sun, Hsian-Rong Tseng, Robert Damoiseaux.
  • Cell-cell channels 2006., Springer
    Cell-cell channels and their implications for cell theory / Frantisek Baluska, Dieter Volkmann, and Peter W. Barlow -- Mating cell-cell channels in conjugating bacteria / Elisabeth Grohmann -- The tetrahymena conjugation junction / Eric S. Cole -- Cytoplasmic bridges in volvox and its relatives / Harold J. Hoops, Ichiro Nishii, and David L. Kirk -- Vegetative hyphal fusion in filamentous fungi / Nick D. Read and M. Gabriela Roca -- Plasmodesmata: cell-cell channels in plants / Yoselin Benitez Alfonso, Laurence Cantrill, and David Jackson -- Sieve-pore plugging mechanisms / Aart J.E. van Bel -- Actin and myosin VIII in plant cell-cell channels / Jozef Samaj ... [et al.] -- Cell-cell communication in wood / John R. Barnett -- TMV movement protein targets cell-cell channels in plants and prokaryotes: possible roles of tubulin- and FtsZ-based cytoskeletons / Manfred Heinlein -- Viral movement proteins induce tubule formation in plant and insect cells / Jan W.M. van Lent and Corinne Schmitt-Keichinger --Cell-cell movements of transcription factors in plants / Alexis Maizel -- Gap junctions: cell-cell channels in animals / Fabio Mammano -- Tunneling nanotubes: membranous channels between animal cells / Hans-Hermann Gerdes and Amin Rustom -- Cytoplasmic bridges as cell-cell channels of germ cells / Sami Ventelä -- Fusome as a cell-cell communication channel of drosophila ovarian cyst / Jean-René Huynh -- Cytonemes as cell-cell channels in human blood cells / Svetlana Ivanovna Galkina .. [et al.] -- Paracellular pores in endothelial barriers / Luca Manzi and Gianfranco Bazzoni -- Channels across endothelial cells / Radu V. Stan -- Molecular transfers through transient lymphoid cell-cell channels / Mary Poupot, Julie Gertner, and Jean-Jacques Fournié -- Cell-cell transport of homeoproteins: with or without channels / Alain Joliot and Alain Prochiantz -- Virological synapse for cell-cell spread of viruses / Eduardo Garcia and Vincent Piguet -- Cell-cell fusion: transient channels leading to plasma membrane merger / William A. Mohler.
  • Cell-cell interactions 2006, Springer Protocols
    Analysis of mammallian sperm-egg membrane interactions during in vitro fertilization / Genevieve B. Wortzman, Allison J. Gardner, and Janice P. Evans -- Collagen gel contraction assay / Peter Ngo ... [et al.] -- Methods to assess tissue permeability / Juan C. Ibla and Joseph Khoury -- Bacterial-bacterial cell interactions in biofilms: detection of polysaccharide intercellular adhesins by blotting and confocal microscopy / Kimberly K. Jefferson and Nuno Cerca -- A biochemical method for tracking cholera toxin transport from plasma membrane to golgi and endoplasmic reticulum / Heidi E. DeLuca and Wayne I. Lencer -- Isolation and culture of murine heart and lung endothelial cells for in vitro model systems / Yaw-Chyn Lim and Frances W. Luscinskas --Blood-brain barrier and cell-cell interactions: methods for establishing in vitro models of the blood/brain barrier and transport measurements / Michael Aschner ... [et al.] -- Interactions of intestinal epithelial cells with bacteria and immune cells: methods to characterize microflora and functional consequences / Geraldine Canny, Alexander Swidsinski, and Beth A. McCormick --Expression cloning of signaling proteins regulated by cell adhesion / Michelle L. Matter and Joe W. Ramos -- Assays for the calcium sensitivity of desmosomes / Anita J. Merritt, Anthea Scothern, and Tanusree Bhattacharyya -- Tight junctions and cell-cell interactions / Markus Utech, Matthias Brüwer, and Asma Nusrat -- Simultaneous immunofluorescence detection of cadherin and [beta]-catenin in mouse tissue sections / Nobuko Obara --In vitro neutrophil transepithelial migration / Winston Y. Lee ... [et al.] -- The blot running assay: a method for identifying adhesion molecules mediating binding under shear conditions / Robert Sackstein and Robert Fuhlbrigge -- Cell-cell interaction in the transcellular biosynthesis of novel [omega]-3-derived lipid mediators / Nan Chiang and Charles N. Serhan -- Isolation and analysis of lipid rafts in cell-cell interactions / Aimee Landry and Ramnik Xavier.The role of junctional adhesion molecules in interactions between vascular cells / Triantafyllos Chavakis and Valeria Orlova -- Cell-cell interactions on solid matrices / Nancy A. Louis, Dionne Daniels, and Sean P. Colgan -- Cell-cell interactions in the kidney: inducible expression of mutant G protein [alpha]-subunits in madin-darby cannine kidney cells for studies of epithelial cell junction structure and function / Ernesto Sabath and Bradley M. Denker -- Nucleotide metabolism and cell-cell interactions / Holger K. Eltzschig ... [et al.] --
  • Cell-penetrating peptides 2011, Springer Protocols
    Classes and prediction of cell-penetrating peptides -- Penetratin story: An overview -- Testing membrane interactions of CPPs -- Interactions of amphipathic CPPs with model membranes -- NMR studies of three-dimensional structure and positioning of CPPs in membrane model systems -- Measurements of the intracellular stability of CPPs -- Tools for predicting binding and insertion of CPPs into lipid bilayers -- Studies of proteoglycan involvement in CPP-mediated delivery -- Uptake kinetics of cell-penetrating peptides -- Thermodynamics of lipid interactions with cell-penetrating peptides -- Calcium and membrane repair -- Mapping of protein transduction pathways with fluorescent microscopy -- Insight into cell-entry mechanisms of CPPs by electron microscopy -- Toxicity methods for CPPs -- Comparison of CPP uptake methods -- Characterization of cellular internalization pathways for CPP-mediated oligonucleotide delivery -- Mimicry of protein function with cell-penetrating peptides -- Homeoprotein intercellular transfer, the hidden face of cell-penetrating peptides -- Pharmacology, biodistribution, and efficacy of GPCR-based pepducins in disease models -- Identification and characterization of tissue-specific protein transduction domains using peptide phage display -- Applications of cell-penetrating peptides as signal transduction modulators for the selective induction of apoptosis -- Splice redirection as a convenient assay to monitor CPP-on efficiency and mechanism -- CPP-directed oligonucleotide exon skipping in animal models of Duchenne muscular dystrophy -- PTD-DRBD siRNA delivery -- A non-covalent peptide-based strategy for siRNA delivery -- Application of pepfect peptides for the delivery of splice-correcting oligonucleotides -- Internalization of nucleoside phosphates into live cells by complex formation with different CPPs and JBS-nucleoducin -- Enhanced cellular delivery of cell-penetrating peptide-peptide nucleic acid conjugates by photochemical internalization -- Identification of homing peptides using the in vivo phage display technology -- Measuring the action of CPP-siRNA conjugates in the lung -- Intracellular delivery of nanoparticles with CPPs -- Multifunctional CPP polymer system for tumor-targeted pDNA and siRNA delivery -- Cell-penetrating penta-peptides and bax-inhibiting peptides: Protocol for their application -- Pair technology: Exon-specific rna-binding protein isolation in live cells -- Quantitation of cellular and topical uptake of luciferin-oligoarginine conjugates -- Industrial-scale manufacturing of a possible oligonucleotide cargo CPP-based drug -- Application of a fusiogenic peptide GALA for intracellular delivery -- Therapeutic applications of cell-penetrating peptides -- Nonclinical and clinical experiences with CPP-based self-assembling peptide systems in topical drug development.
  • Section 1 Historical Introduction to Secreted Cell Stress Proteins as Signalling Proteins -- Discovery of the Cellular Secretion of Cell Stress Proteins -- Discovery of the Agonist Activities of Molecular Chaperones and Protein-Folding Catalysts -- Identification of Cell Stress Proteins in Biological Fluids -- Section 2 Intracellular Trafficking of Molecular Chaperones and its Consequences -- Hsp27 Phosphorylation Patterns and Cellular Consequences -- Evidence on Cholesterol-Controlled Lipid Raft Interaction of the Small Heat Shock Protein HSPB11 -- Hsp70 Chaperone Systems in Vesicular Trafficking -- Pathways of Hsp70 Release: Lessons from Cytokine Secretion -- Nucleolin: A Novel Intracellular Transporter of HSPA1A -- The Hsp90-Based Protein Trafficking System and Linkage to Protein Quality Control -- Section 3 Molecular Chaperones as Cell Surface Receptors and Receptor Ligands -- Cell Surface Molecular Chaperones and the LPS Receptor -- Hsp60: An Unexpected Cell Surface Receptor in Prokaryotes and Eukaryotes -- Pathophysiological Barriers Impeding the Delivery of Heat Shock Protein (HSP)-based Macromolecules and Nanotherapeutics to Solid Tumors -- The Chaperokine Activity of HSPA1A -- Molecular Chaperones and Scavenger Receptors: Binding and Trafficking of Molecular Chaperones by Class F and Class H Scavenger Receptors -- Grp78 (BiP): A Multifunctional Cell Surface Receptor -- Section 4 Extracellular Secretion of Molecular Chaperones in Prokaryotes and Eukaryotes -- Mycobacterium Tuberculosis Hsp60 as a Key Virulence Factor in Tuberculosis -- Hsp90 vs Conventional Growth Factors in Acute and Diabetic Wound Healing -- Circulating Molecular Chaperones in Health and Disease -- Index.
  • Chaperonopathies 2013, Springer
    This Brief provides a concise review of chaperonopathies, i.e., diseases in which molecular chaperones play an etiologic-pathogenic role. Introductory chapters deal with the chaperoning system and chaperoning teams and networks, HSP-chaperone subpopulations, the locations and functions of chaperones, and chaperone genes in humans. Other chapters present the chaperonopathies in general, including their molecular features and mechanistic classification into by defect, excess, or mistake. Subsequent chapters discuss the chaperonopathies in more detail, focusing on their distinctive characteristic.
  • Chemical genomics 2006, Springer
  • Chemical genomics 2005, Springer Protocols
  • Ch. 1. Utilizing small molecules in chemical genomics : toward high-throughput (HT) approaches / György Dormán and Ferenc Darvas -- ch. 2. Development and application of novel analytical methods in lipidomics / Yuqin Wang ... [et al.] -- ch. 3. From chemical genomics to chemical proteomics : the power of microarray technology / Sándor Spisák and András Guttman -- ch. 4. Genomic and proteomic biomarkers in the drug R&D process / László Takács, Anna Debreceni, and István Kurucz -- ch. 5. Quo vadis biomedical sciences in the omics era : toward computational biology and medicine / András Falus ... [et al.] -- ch. 6. Novel chemogenomic approaches to drug design / Didier Rognan.
  • Chemical library design 2011, Springer Protocols
    Historical overview of chemical library design / Roland E. Dolle -- Chemoinformatics and library design / Joe Zongxiang Zhou -- Molecular library design using multi-objective optimization methods / Christos A. Nicolaou and Christos C. Kannas -- A scalable approach to combinatorial library design / Puneet Sharma, Srinivasa Salapaka, and Carolyn Beck -- Application of Free-Wilson selectivity analysis for combinatorial library design / Simone Sciabola ... [et al.] -- Application of QSAR and shape pharmacophore modeling approaches for targeted chemical library design / Jerry O. Ebalunode, Weifan Zheng, and Alexander Tropsha -- Combinatorial library design from reagent pharmacophore fingerprints / Hongming Chen, Ola Engkvist, and Niklas Blomberg -- Docking methods for structure-based library design / Claudio N. Cavasotto and Sharangdhar S. Phatak -- Structure-based library design in efficient discovery of novel inhibitors / Shunqi Yan and Robert Selliah -- Structure-based and property-compliant library design of 11[beta]-HSD1 adamantyl amide inhibitors / Genevieve D. Paderes ... [et al.] -- Design of screening collections for successful fragment-based lead discovery / James Na and Qiyue Hu -- Fragment-based drug design / Eric Feyfant ... [et al.] -- LEAP into the Pfizer Global Virtual Library (PGVL) space : creation of readily synthesizable design ideas automatically / Qiyue Hu ... [et al.] -- The design, annotation, and application of a kinase-targeted library / Hualin Xi and Elizabeth A. Lunney -- PGVL hub : an integrated desktop tool for medicinal chemists to streamline design and synthesis of chemical libraries and singleton compounds / Zhengwei Peng ... [et al.] -- Design of targeted libraries against the human Chk1 kinase using PGVL hub / Xengwei Peng and Qiyue Hu -- GLARE : a tool for product-oriented design of combinatorial libraries / Jean-François Truchon -- CLEVER : a general design tool for combinatorial libraries / Tze Hau Lam ... [et al.].
  • Chromosomal mutagenesis 2008, Springer Protocols
    Biallelic gene knockouts in Chinese hamster ovary cells / Naoko Yamane-Ohnuki, Kazuya Yamano, and Mitsuo Satoh -- Highly proficient gene targeting by homologous recombination in the human pre-B cell line Nalm-6 / Noritaka Adachi, Aya Kurosawa, and Hideki Koyama -- Robust cell line development using meganucleases / Jean-Pierre Cabaniols and Frédéric Pâques -- Design and testing of zinc finger nucleases for use in mammalian cells / Matthew Porteus -- Gene targeting in Drosophila and Caenorhabditis elegans with zinc-finger nucleases / Dana Carroll ... [et al.] -- Orpheus recombination : a comprehensive bacteriophage system for murine targeting vector construction by transplacement / Knut Woltjen ... [et al.] -- Transposition -mediated mutagenesis in somatic cells : identification of transposon-genomic DNA junctions / David A. Largaespada and Lara S. Collier -- Insertional mutagenesis of the mouse germline with sleeping beauty transposition / Junji Takeda, Zsuzsanna Izsvák, and Zoltán Ivics -- Conditional gene trapping using the FLEx system / Thomas Floss and Frank Schnütgen -- Steps toward targeted insertional mutagenesis with class II transposable elements / Sareina Chiung-Yuan wu ... [et al.] -- Targeting integration of the Saccharomyces Ty5 retrotransposon / Troy L. Brady, Clarice L. Schmidt, and Daniel F. Voytas -- Site-specific chromosomal integration mediated by [phi]C31 integrase / Annahita Keravala and Michele P. Calos-- Triplex-mediated gene modification / Erica B. Schleifman, Joanna Y.Chin, and Peter M. Glazer -- Allelic exchange of unmarked mutations in Mycobacterium tuberculosis / Martin S. Pavelka, Jr. -- Mycobacterial recombineering Julia C. van Kessel and Graham F. Hatfull -- Chromosomal engineering of Clostridium perfringens using group II introns / Phalguni Gupta and Yue Chen.
  • Circadian rhythms 2007, Springer Protocols
    Basic protocols for drosophila S2 cell line: maintenance and transfection / M. Fernanda Ceriani -- Co-immunoprecipitation on drosophila cells in culture / M. Fernanda Ceriani -- Basic protocols for zebrafish cell lines: maintenance and transfection / Daniela Vallone ... [et al.] -- Manipulation of mammalian cell lines for circadian studies / Filippo Tamanini -- Reporter assays / M. Fernanda Ceriani -- Use of firefly luciferase activity assays to monitor circadian molecular rhythms in vivo and in vitro / Wangjie Yu and Paul E. Hardin -- Suprachiasmatic nucleus cultures that maintain rhythmic properties in vitro / K. Tominaga-Yoshino, T. Ueyama, and H. Okamura -- RNA in situ hybridizations on drosophila whole mounts / Corinna Wulbeck and Charlotte Helfrich-Forster -- In situ hybridization of suprachiasmatic nucleus slices / Horacio O. de la Iglesia -- Immunohistochemistry in drosophila: sections and whole mounts / Charlotte Helfrich-Forster -- Immunocytochemistry on suprachiasmatic nucleus slices / Marta Muñoz Llamosas -- Immunofluorescence analysis of circadian protein dynamics in cultured mammalian cells / Filippo Tamanini.Light, photoreceptors, and circadian clocks / Russell G. Foster, Mark W. Hankins, and Stuart N. Peirson -- Statistical analysis of biological rhythm data / Harold B. Dowse -- Rhythmic conidiation in Neurospora crassa / Cas Kramer -- Monitoring and analyzing drosophila circadian locomotor activity / Mauro A. Zordan, Clara Benna, and Gabriella Mazzotta -- Automated video image analysis of larval zebrafish locomotor rhythms / Gregory M. Cahill -- Locomotor activity in rodents / Gianluca Tosini -- Analysis of circadian leaf movement rhythms in Arabidopsis thaliana / Kieron D. Edwards and Andrew J. Millar -- Detection of rhythmic bioluminescence from luciferase reporters in cyanobacteria / Shannon R. Canales ... [et al.] -- Analysis of rhythmic gene expression in adult drosophila using the firefly-luciferase reporter gene / Ralf Stanewsky -- Monitoring circadian rhythms in Arabidopsis thaliana using luciferase reporter genes / Anthony Hall and Paul Brown -- Specialized techniques for site-directed mutagenesis in cyanobacteria / Eugenia M. Clerico, Jayna L. Ditty, and Susan S. Golden -- Novel strategies for the identification of clock genes in neurospora with insertional mutagenesis / Kruno Sveric ... [et al.] -- Mutagenesis with drosophila / Patrick Emery -- Mutagenesis in arabidopsis / Jodi Maple and Simon G. Moller -- Yeast two-hybrid screening / Jodi Maple and Simon G. Moller --Microarrays: quality control and hybridization protocol / Ken-ichiro Uno and Hiroki R. Ueda -- Microarrays: statistical methods for circadian rhythms / Rikuhiro Yamada and Hiroki R. Ueda -- Identification of clock genes using difference gel electrophoresis / Natasha A. Karp and Kathryn S. Lilley -- Isolation of total RNA from Neurospora mycelium / Cas Kramer -- RNA extraction from drosophila heads / Patrick Emery -- Extraction of plant RNA / Michael G. Salter and Helen E. Conlon -- RNA extraction from mammalian tissues / Stuart N. Peirson and Jason N. Butler -- Northern analysis of sense and antisense fequency RNA in Neurospora crassa / Cas Kramer -- RNase protection assay / Patrick Emery -- Quantitative polymerase chain reaction / Stuart N. Peirson and Jason N. Butler -- Protein extraction, fractionation, and purification from cyanobacteria / Natalia B. Ivleva and Susan S. Golden -- Protein extraction from drosophila heads / Patrick Emery -- Plant protein extraction / Helen E. Conlon and Michael G. Salter -- Protein extraction from mammalian tissues / Choogon Lee -- Western blotting / Choogon Lee -- Co-immunoprecipitation assay / Choogon Lee -- In vitro phosphorylation and kinase assays in Neurospora crassa / Lisa Franchi and Giuseppe Macino --
  • Clinical applications of PCR. 2nd ed. 2006, Springer Protocols
    Introduction to the polymerase chain reaction / Y.M. Dennis Lo and K.C. Allen Chan -- Setting up a polymerase chain reaction laboratory / Y.M. Dennis Lo and K.C. Allen Chan -- Real-time polymerase chain reaction and melting curve analysis / Robert J. Pryor and Carl T. Wittwer -- Qualitative and quantitative polymerase chain reaction-based methods for DNA methylation analyses / Ivy H.N. Wong -- In-cell polymerase chain reaction: strategy and diagnostic applications / T. Vauvert Hviid -- Qualitative and quantitative DNA and RNA analysis by matrix-assisted laser desorption/ionisation time-of-flight mass spectrometry / Chunming Ding -- Analysis of polymerase chain reaction products by denaturing high-performance liquid chromatography / Ching-Wan Lam -- Use of real-time polymerase chain reaction for the detection of fetal aneuploidies / Bernhard Zimmermann ... [et al.] -- Noninvasive prenatal diagnosis by analysis of fetal DNA in maternal plasma / Rossa W. K. Chiu and Y. M. Dennis Lo --Clinical applications of plasma Epstein-Barr virus DNA analysis and protocols for the quantitative analysis of the size of circulating Epstein-Barr virus DNA / K.C. Allen Chan and Y.M. Dennis Lo -- Molecular analysis of circulating RNA in plasma / Nancy B.Y. Tsui, Enders K.O. Ng, and Y.M. Dennis Lo -- Molecular analysis of mitochondrial DNA point mutations by polymerase chain reaction / Lee-Jun C. Wong, Bryan R. Cobb, and Tian-Jian Chen -- Novel applications of polymerase chain reaction to urinary nucleic acid analysis / Anatoly V. Lichtenstein ... [et al.] -- Detection and quantitation of circulating plasmodium falciparum DNA by polymerase chain reaction / Shira Gal and James S. Wainscoat -- Molecular diagnosis of severe acute respiratory syndrome / Enders K.O. Ng and Y.M. Dennis Lo -- Genomic sequencing of the severe acute respiratory syndrome-coronavirus / Stephen S.C. Chim, Rossa W.K. Chiu, and Y.M. Dennis Lo.
  • Clinical proteomics 2008, Springer Protocols
    Overview and introduction to clinical proteomics / Young-Ki Paik ... [et al.] -- Specimen collection and handling : standardization of blood sample collection / Harald Tammen -- Tissue sample collection for proteomics analysis / Jose I. Diaz, Lisa H. Cazares, and O. John Semmes -- Protein profiling of human plasma samples by two-dimensional electrophesis / Sang Yun Cho ... [et al.] -- Analysis of laser capture microdissected cells by 2-dimensional gel electrophoresis / Daohai Zhang and Evelyn Siew-Chuan Koay -- Optimizing the difference gel electrophesis (DIGE) technology / David B. Friedman and Kathryn S. Lilley -- MALDI/SELDI protein profiling of serum for the identification of cancer biomarkers / Lisa H. Cazares ... [et al.] -- Urine sample preparation and protein profiling by two-dimensional electrophoresis and matrix-assisted laser desorption ionization time of flight mass spectroscopy / Panagiotis G. Zerefos and Antonia Vlahou -- Combining laser capture microdissection and proteomics techniques / Dana Mustafa, Johan M. Kros, and Theo Luider -- Comparison of protein expression by isotope-coded affinity tag labeling / Zhen Xiao and Timothy D. Veenstra -- Analysis of microdissected cells by two-dimensional LC-MS approaches / Chen Li ... [et al.] -- Label-free LC-MS method for the identification of biomarkers / Richard E. Higgs ... [et al.] -- Analysis of the extracellular matrix and secreted vesicle proteomes by mass spectrometry / Zhen Xiao ... [et al.] -- Miniaturized parallelized sandwich immunoassays / Hsin-Yun Hsu, Silke Wittemann, and Thomas O. Joos -- Dissecting cancer serum protein profiles using antibody arrays / Marta Sanchez-Carbayo -- 2D-PAGE maps analysis / Emilio Marengo, Elisa Robotti, and Marco Bobba -- Finding the significant markers : statistical analysis of proteomic data / Sebastien Christian Carpentier ... [et al.] -- Web-based tools for protein classification / Costas D. Paliakasis, Ioannis Michalopoulos, and Sophia Kossida -- Open-source platform for the analysis of liquid chromatography-mass spectrometry (LC-MS) data / Matthew Fitzgibbon ... [et al.] -- Pattern recognition approaches for classifying proteomic mass spectra of biofluids / Ray L. Somorjai.
  • This is the first book completely devoted to exploring the state-of-the-art course-graining techniques for molecular simulations. Leading contributors discuss a broad range of topics, including nucleic acids, minimalist models for protein folding, mixed resolution course graining and elastic network models of protein complexes.
  • Comparative genomics 2006, Springer
  • Recent advances in development of sequencing technology has resulted in a deluge of genomic data. In order to make sense of this data, there is an urgent need for algorithms for data processing and quantitative reasoning. An emerging in silico approach, called computational genomic signatures, addresses this need by representing global species-specific features of genomes using simple mathematical models. This text introduces the general concept of computational genomic signatures, and it reviews some of the DNA sequence models which can be used as computational genomic signatures. The text takes the position that a practical computational genomic signature consists of both a model and a measure for computing the distance or similarity between models. Therefore, a discussion of sequence similarity/distance measurement in the context of computational genomic signatures is presented. The remainder of the text covers various applications of computational genomic signatures in the areas of metagenomics, phylogenetics and the detection of horizontal gene transfer.
  • Computational systems biology 2009, Springer Protocols
    Part 1. Network components -- 1. Identification of cis-regulatory elements in gene co-expression networks using A-GLAM / Leonardo Mariño-Ramírez ... [et al.] -- 2. Structure-based Ab initio prediction of transcription factor-binding sites / L. Angela Liu and Joel S. Bader -- 3. Inferring protein-protein interactions from multiple protein domain combinations / Simon P. Kanaan ... [et al.] -- 4. Prediction of protein-protein interactions: a study of the co-evolution model / Itai Sharon, Jason V. Davis, and Golan Yona -- 5. Computational reconstruction of protein-protein interaction networks: algorithms and issues / Eric Franzosa, Bolan Linghu, and Yu Xia -- 6. Prediction and integration of regulatory and protein-protein interactions / Duangdao Wichadakul, Jason McDermott, and Ram Samudrala -- 7. Detecting hierarchical modularity in biological networks / Erzsebet Ravasz -- Part 2. Network inference -- 8. Methods to reconstruct and compare transcriptional regulatory networks / M. Madan Babu, Benjamin Lang, and L. Aravind -- 9. Learning global models of transcriptional regulatory networks from data / Aviv Madar and Richard Bonneau -- 10. Inferring molecular interactions pathways from eQTL data / Imran Rashid, Jason McDermott, and Ram Samudrala -- 11. Methods for the inference of biological pathways and networks / Roger E. Bumgarner and Ka Yee Yeung --Part 3. Network dynamics -- 12. Exploring pathways from gene co-expression to network dynamics / Huai Li, Yu Sun, and Ming Zhan -- 13. Network dynamics / Herbert M. Sauro -- 14. Kinetic modeling of biological systems / Haluk Resat, Linda Petzold, and Michel F. Pettigrew -- 15. Guidance for data collection and computational modelling of regulatory networks / Adam Christopher Palmer, and Keith Edward Shearwin -- Part 4. Function and evolutionary systems biology -- 16. Maximum likelihood method for reconstruction of the evolution of eukaryotic gene structure / Liran Carmel, ... [et al.] -- 17. Enzyme function prediction with interpretable models / Umar Syed and Golan Yona -- 18. Using evolutionary information to find specificity-determining and co-evolving residues / Grigory Kolesov and Leonid A. Mirny -- 19. Connecting protein interaction data, mutations, and disease using bioinformatics / Jake Y. Chen, Eunseog Youn, and Sean D. Mooney -- 20. Effects of functional bias on supervised learning of a gene network model / Insuk Lee and Edward M. Marcotte -- Part 5. Computational infrastructure for systems biology -- 21. Comparing algorithms for clustering of expression data: how to assess gene clusters / Golan Yona, William Dirks, and Shafquat Rahman -- 22. Bioverse API and web application / Michal Guerquin ... [et al.] -- 23. Computational representation of biological systems / Zach Frazier ... [et al.] -- 24. Biological network inference and analysis using SEBINI and CABIN / Ronald Taylor and Mudita Singhal.
  • CRISPR-Cas systems 2013, Springer
    CRISPR-Cas is a recently discovered defense system which protects bacteria and archaea against invasion by mobile genetic elements such as viruses and plasmids. A wide spectrum of distinct CRISPR-Cas immune systems has been identified in at least half of the available prokaryotic genomes. On-going biochemical and functional analyses have resulted in substantial insight into the functions and possible applications of these fascinating systems, although many secrets remain to be uncovered. In this book, experts summarize the state of the art of this exciting field.
  • ch. 1. Escherichia coli, Plasmids, and Bacteriophages -- ch. 2. Preparation and Analysis of DNA -- ch. 3. Enzymatic Manipulation of DNA and RNA -- ch. 4. Preparation and Analysis of RNA -- ch. 5. Construction of Recombinant DNA Libraries -- ch. 6. Screening of Recombinant DNA Libraries -- ch. 7. DNA Sequencing -- ch. 8. Mutagenesis of Cloned DNA -- ch. 9. Introduction of DNA into Mammalian Cells -- ch. 10. Analysis of Proteins -- ch. 11. Immunology -- ch. 12. DNA-Protein Interactions -- ch. 13. Yeast -- ch. 14. In Situ Hybridization and Immunohistochemistry -- ch. 15. The Polymerase Chain Reaction -- ch. 16. Protein Expression -- ch. 17. Preparation and Analysis of Glycoconjugates -- ch. 18. Analysis of Protein Phosphorylation -- ch. 19. Informatics for Molecular Biologists -- ch. 20. Analysis of Protein Interactions -- ch. 21. Chromatin Assembly and Analysis -- ch. 22. Nucleic Acid Arrays -- ch. 23. Manipulating the Mouse Genome -- ch. 24. Generation and Use of Combinatorial Libraries -- ch. 25. Discovery and Analysis of Differentially Expressed Genes in Single Cells and Cell Populations -- ch. 26. Gene Silencing -- ch. 27. RNA-Protein Interactions -- ch. 28. Mammalian Cell Culture -- ch. 29. Mouse Phenotyping -- ch. 30. Metabolomics -- Appendix 1. Standard Measurements, Data, and Abbreviations -- Appendix 2. Commonly Used Reagents and Equipment -- Appendix 3. Commonly Used Techniques in Biochemistry and Molecular Biology -- Appendix 4. Suppliers -- Appendix 5. Vectors -- Appendix 6. Pathway Modulators and Inhibitors.
  • Cytochrome P450 protocols. 2nd ed. 2005, Springer Protocols
    Cytochrome P450 nomenclature, 2004 / David R. Nelson -- Spectral analyses of cytochromes P450 / John B. Schenkman and Ingela Jansson -- Establishment of functional human cytochrome P450 monooxygenase systems in Escherichia coli / Michael P. Pritchard, Lesley McLaughlin, and Thomas Friedberg -- Purification of cytochromes P450: products of bacterial recombinant expression systems / F. Peter Guengerich and Martha V. Martin -- Expression of recombinant flavin-containing monooxygenases in a baculovirus/insect cell system / Azara Janmohamed ... [et al.] -- Cytochrome P450 reconstitution systems / Hiroshi Yamazaki and Tsutomu Shimada -- Catalytic assays for human cytochrome P450: an introduction / Thomas K.H. Chang and David J. Waxman -- Enzymatic analysis of cDNA-expressed human CYP1A1, CYP1A2, and CYP1B1 with 7-ethoxyresorufin as substrate / Thomas K.H. Chang and David J. Waxman -- Spectrofluorometric analysis of CYP2A6-catalyzed coumarin 7-hydroxylation / David J. Waxman and Thomas K.H. Chang -- Determination of CYP2B6 component of 7-ethoxy-4-trifluoromethylcoumarin O-deethylation activity in human liver microsomes / Thomas K.H. Chang, Charles L. Crespi, and David J. Waxman -- High-performance liquid chromatography analysis of CYP2C8-catalyzed paclitaxel 6[alpha]-hydroxylation / Charles L. Crespi, Thomas K.H. Chang, and David J. Waxman -- Determination of CYP2C0-catalyzed diclofenac 4'-hydroxylation by high-performance liquid chromatography / Charles L. Crespi, Thomas K.H. Chang, and David J. Waxman -- CYP2C19-mediated (S)-mephenytoin 4'-hydroxylation assayed by high-performance liquid chromatography with radiometric detection / Charles L. Crespi, Thomas K.H. Chang, and David J. Waxman -- CYP2D6-dependent bufuralol 1'-hydroxylation assayed by reverse-phase ion-pair high-performance liquid chromatography with fluorescence detection / Charles L. Crespi, Thomas K.H. Chang, and David J. Waxman -- Spectrophotometric analysis of human CYP2E1-catalyzed p-nitrophenol hydroxylation / Charles L. Crespi, Thomas K.H. Chang, and David J. Waxman -- Thin-layer chromotography analysis of human CYP23A-catalyzed testosterone 6[beta]-hydroxylation / David J. Waxman and Thomas K.H. Chang -- Determination of CYP4A11-catalyzed lauric acid 12-hydroxylation by high-performance liquid chromotography with radiometric detection / Charles L. Crespi, Thomas K.H. Chang, and David J. Waxman -- An isocratic high-performance liquid chromatography assay for CYP7A1-catalyzed cholesterol 7[alpha]-hydroxylation / David Waxman and Thomas K.H. Chang -- Use of 7-ethoxycoumarin to monitor multiple enzymes in the human CYP1, CYP2, and CYP3 families / David J. Waxman and Thomas K.H. Chang -- Benzydamine N-oxygenation as a measure of flavin-containing monooxygenase activity / Catherine K. Yeung and Allan E. Rettie -- Prochiral sulfoxidation as a probe for flavin-containing monooxygenases / Catherine K. Yeung and Allan E. Rettie -- Targeting antipeptide antibodies toward cytochrome P450 enzymes / Robert J. Edwards -- The Human Cytochrome P450 Allele Nomenclature Committee web site: submission criteria, procedures, and objectives / Sarah C. Sim and Magnus Ingelman-Sundberg -- Genotyping for cytochrome P450 polymorphisms / Ann K. Daly, Barry P. King, and Julian B.S. Leathart -- Hepatocyte cultures in drug metabolism and toxicological research and testing / Tamara VanHaecke and Vera Rogiers -- Isolation of rat hepatocytes / Peggy Papeleu ... [et al.] -- Rat hepatocyte cultures: conventional monolayer and cocultures with rat liver epithelial cells / Tom Henkens ... [et al.] -- Rat hepatocyte cultures: collagen gel sandwich and immobilization cultures / Mathieu Vinken ... [et al.] -- Hepatocytes in suspension / Greetje Elaut ... [et al.] -- Isolation of rat bone marrow stem cells / Sarah Snykers, Tamara Vanhaecke, and Vera Rogiers -- Transfection of primary cultures of rat hepatocytes / Mina Edwards -- Human hepatocyte culture / Lydiane Pichard ... [et al.] -- Determination of cellular localization of the expression of flavin-containing monooxygenase genes in mouse tissues by in situ hybridization / Azara Janmohamed, Ian R. Phillips, and Elizabeth A. Shephard -- Deletion of genes from the mouse genome using cre/loxP technology / Diana Hernandez ... [et al.] -- Characterization of targeted mouse embryonic stem cell chromosomes: karyotyping and fluorescence in situ hybridization of metaphase spreads / Diana Hernandez, Ian R. Phillips, and Elizabeth A. Shephard -- Microinjection of targeted embryonic stem cells and establishment of knockout mouse lines for fmo genes / Diana Hernandez ... [et al.] -- Use of reporter genes to measure xenobiotic-mediated activation of CYP gene transcription / Nick Plant.
  • Data mining in proteomics 2011, Springer Protocols
    Instruments and methods in proteomics -- In-depth protein characterization by mass spectrometry -- Analysis of phosphoproteomics data -- The origin and early reception of sequence databases -- Laboratory data and sample management for proteomics -- PRIDE and "Database on demand" As valuable tools for computational proteomics -- Analysing proteomics identifications in the context of functional and structural protein annotation: Integrating annotation using PICR, DAS, and BioMart -- Tranche distributed repository and proteomecommons.Org -- Data standardization by the HUPO-PSI: How has the community benefitted? -- mzIdentML: An open community-built standard format for the results of proteomics spectrum identification algorithms -- Spectra, chromatograms, metadata: mzML-the standard data format for mass spectrometer output -- imzML: Imaging mass spectrometry markup language: A common data format for mass spectrometry imaging -- Tandem mass spectrometry spectral libraries and library searching -- Inter-lab proteomics: Data mining in collaborative projects on the basis of the HUPO brain proteome project's pilot studies -- Data management and data integration in the HUPO plasma proteome project -- Statistics in experimental design, preprocessing, and analysis of proteomics data -- The evolution of protein interaction networks -- Cytoscape: Software for visualization and analysis of biological networks -- Text mining for systems modeling -- Identification of alternatively spliced transcripts using a proteomic informatics approach -- Distributions of ion series in ETD and CID spectra: Making a comparison -- Evaluation of peak-picking algorithms for protein mass spectrometry -- OpenMS and TOPP: Open source software for LC-MS data analysis -- LC/MS data processing for label-free quantitative analysis -- Spectral properties of correlation matrices - towards enhanced spectral clustering -- Standards, databases, and modeling tools in systems biology -- Modeling of cellular processes: Methods, data, and requirements.
  • The hedgehog signaling pathway in cancer / J. Vestergaard, Mads Bak, L.A. Larsen -- Rho GTPases and cancer / P. Buongiorno, B. Bapat -- Developmental biology of fibroblasts and neoplastic disease / D. Brouty-Boyé -- The extracellular matrix during normal development and neoplastic growth / J. Labat-Robert, L. Robert -- Wilms' tumor : starting off the kidney all over again? / M. Little -- Testicular teratomas : back to pluripotent stem cells / T. Kimura ... [et al.] / Tumor suppressors APC and VHL : gatekeepers of the intestine and kidney / R.H. Giles, E.E. Voest -- Hormonal and stromal regulation of normal and neoplastic prostatic growth / W.A. Ricke ... [et al.] -- Neoplastic growth through the developmental stages of the organism / A. Maciera-Coelho.
  • Bioinformatics: mystery, astrology, or service technology? / Frank Eisenhaber -- Reliable and specific protein function prediction by combining homology with genomic(s) context / Martijn A. Huynen, Berend Snel, and Toni Gabalden -- Clues from three-dimensional structure analysis and molecular modelling: new insights into cytochrome P450 mechanisms and functions / Karin Schleinkofer and Thomas Dandekar -- Prediction of protein function: two basic concepts and one practical recipe / Frank Eisenhaber -- Extracting information for meaningful function inference through text-mining / Hong Pan ... [et al.] -- Literature and genome data mining for prioritizing disease-associated genes / Carolina Perez-Iratxeta, Peer Bork, and Miguel A. Andrade -- Model-based inference of transcriptional regulatory mechanisms from DNA microarray data / Harmen J. Bussemaker --The predictive power of molecular network modelling: case studies of predictions with subsequent experimental verification / Stefan Schuster, Edda Klipp, and Marko Marhl -- Theory of early molecular evolution: predictions and confirmations / Edward N. Trifonov -- Hitchhiking mapping: limitations and potential for the identification of ecologically important genes / Christian Schlötterer -- Understanding the functional importance of human single nucleotide polymorphisms / Saurabh Asthana and Shamil Sunyaev -- Correlations between quantitative measures of genome evolution, expression, and function / Yuri I. Wolf, Liran Carmel, and Eugene V. Koonin.
  • In situ detection of apoptosis by the TUNEL assay: An overview of techniques -- Combination of TUNEL assay with immunohistochemistry for simultaneous detection of DNA fragmentation and oxidative cell damage -- EM-ISEL: A useful tool to visualize DNA damage at the ultrastructural level -- In situ labeling of DNA breaks and apoptosis by T7 DNA polymerase -- In situ ligation: A decade and a half of experience -- In situ ligation simplified: Using PCR fragments for detection of double-strand DNA breaks in tissue sections -- 5'OH DNA breaks in apoptosis and their labeling by topoisomerase-based approach -- Detection of DNA strand breaks in apoptotic cells by flow- and image-cytometry -- Fluorochrome-labeled inhibitors of caspases: Convenient in vitro and in vivo markers of apoptotic cells for cytometric analysis -- Combining fluorescent in situ hybridization with the comet assay for targeted examination of DNA damage and repair -- Simultaneous labeling of single- and double-strand DNA breaks by DNA breakage detection-FISH (DBD-FISH) -- Co-localization of DNA repair proteins with UV-induced DNA damage in locally irradiated cells -- Ultrasound imaging of apoptosis: Spectroscopic detection of DNA-damage effects at high and low frequencies -- Quantifying etheno-DNA adducts in human tissues, white blood cells, and urine by ultrasensitive (32)P-postlabeling and immunohistochemistry -- ELISpot assay as a tool to study oxidative stress in peripheral blood mononuclear cells -- Cytokinesis-block micronucleus cytome assay in lymphocytes -- Buccal micronucleus cytome assay -- [Gamma]-H2AX detection in peripheral blood lymphocytes, splenocytes, bone marrow, xenografts, and skin -- Immunologic detection of benzo(a)pyrene-DNA adducts -- Non-invasive assessment of oxidatively damaged DNA: Liquid chromatography-tandem mass spectrometry analysis of urinary 8-oxo-7,8-dihydro-2'-deoxyguanosine -- Assessing sperm DNA fragmentation with the sperm chromatin dispersion test.
  • DNA-protein interactions. 3rd ed. 2009, Springer Protocols
    Filter-binding assays / Peter G. Stockley -- Electrophoretic mobility shift assays for the analysis of DNA-protein interactions / Manon Gaudreault ... [et al.] -- DNase I footprinting / Benoît Leblanc and Tom Moss -- Exonuclease III footprinting on immobilized DNA templates / Patrizia Spitalny and Michael Thomm -- Hydroxyl radical footprinting of protein-DNA complexes / Indu Jagannathan and Jeffrey J. Hayes -- The use of diethyl pyrocarbonate and potassium permanganate as probes for strand separation and structural distortions in DNA / Brenda F. Kahl and Marvin R. Paule -- Uranyl photofootprinting / Peter E. Nielsen -- Identification of protein/DNA contacts with dimethyl sulfate : methylation protection and methylation interference / Peter E. Shaw and A. Francis Stewart -- Ethylation interference footprinting of DNA-protein complexes / Iain W. Manfield and Peter G. Stockley -- Site-directed cleavage of DNA by protein-Fe(II) EDTA conjugates within model chromatin complexes / David R. Chafin and Jeffrey J. Hayes -- Identification of nucleic acid high-affinity binding sequences of proteins by SELEX / Philippe Bouvet -- Identification of sequence-specific DNA-binding proteins by southwestern blotting / Simon Labbé, Jean-François Harrisson, and Carl Séguin -- Footprinting DNA-protein interactions in native polyacrylamide gels by chemical nucleolytic activity of 1,10-phenanthroline-copper / Athanasios G. Papavassiliou -- Determination of a transcription factor-binding site by nuclease protection footprinting onto southwestern blots / Athanasios G. Papavassiliou -- Use of a reporter gene assay in yeast for genetic analysis of DNA-protein interactions / David R. Setzer ... [et al.] -- Chromatin immunoprecipitation in mammalian cells / Amy Svotelis, Nicolas Gévry, and Luc Gaudreau -- Sequential chromatin immunoprecipitation protocol : ChIP-reChIP / Mayra Furlan-Magaril, Héctor Rincón-Arano, and Félix Recillas-Targa -- Profiling genome-wide histone modifications and variants by ChIP-chip on tiling microarrays in S. cerevisiae / Alain R. Bataille and François Robert -- Nucleosome mapping / Nicolas Gévry ... [et al.] -- In cellulo DNA analysis (LMPCR footprinting) / Régen Drouin ... [et al.] -- Atomic force microscopy imaging and probing of DNA, proteins, and protein DNA complexes : silatrane surface chemistry / Yuri L. Lyubchenko, Luda S. Shlyakhtenko, and Alexander A. Gall -- Two-dimensional crystallisation of soluble protein complexes / Patrick Schultz, Corinne Crucifix, and Luc Lebeau -- Assays for transcription factor activity / Douglas Browning ... [et al.] -- Ultraviolet crosslinking of DNA protein complexes via 8-azidoadenine / Rainer Meffert ... [et al.] -- Static and kinetic site-specific protein-DNA photocrosslinking : analysis of bacterial transcription initiation complexes / Nikolai Naryshkin ... [et al.] -- Use of site-specific protein-DNA photocrosslinking of purified complexes to analyze the topology of the RNA polymerase II transcription initiation complex / Diane Forget, Céline Domecq, and Benoit Coulombe -- Site-directed DNA crosslinking of large multisubunit protein-DNA complexes / Jim Persinger and Blaine Bartholomew -- Functional studies of DNA-protein interactions using FRET techniques / Simon Blouin ... [et al.] -- Single-molecule FRET analysis of protein-DNA complexes / Mike Heilemann ... [et al.] -- Analysis of DNA supercoiling induced by DNA-protein interactions / David J. Clark and Benoît Leblanc -- The cruciform DNA mobility shift assay : a tool to study proteins that recognize bent DNA / Victor Y. Stefanovsky and Tom Moss -- Plasmid vectors for the analysis of protein-induced DNA bending / Christian Zwieb and Sankar Adhya -- Analysis of distant communication on defined chromatin templates in vitro / Yury S. Polikanov and Vasily M. Studitsky -- A competition assay for DNA binding using the fluorescent probe ANS / Ian A. Taylor and G. Geoff Kneale -- Fluorescence spectroscopy and anisotropy in the analysis of DNA-protein interactions / Rosy Favicchio ... [et al.] -- Circular dichroism for the analysis of protein-DNA interactions / P.D. Cary and G. Geoff Kneale -- Defining the thermodynamics of protein/DNA complexes and their components using micro-calorimetry / Colyn Crane-Robinson, Anatoly I. Dragan, and Christopher M. Read -- Surface plasmon resonance assays of DNA-protein interactions / Peter G. Stockley and Björn Persson.
  • Drosophila 2008, Springer Protocols
    Drosophila melanogaster and the development of biology in the 20th century / Alfonso Martinez Arias -- Getting started : an overview on raising and handling Drosophila / Hugo Stocker and Peter Gallant -- FlyBase : a database for the Drosophila research community / Rachel Drysdale and the FlyBase Consortium -- The use of P-element transposons to generate transgenic flies / André Bachmann and Elisabeth Knust -- The GAL4 system : a verstile system for the expression of genes / David A. Elliott and Andrea H. Brand -- P-element mutagenesis / Thomas Hummel and Christian Klämbt -- EMS screens : from mutagenesis to screening and mapping / Christian Bökel -- RNAi screening in cultured Drosophila cells / Sandra Steinbrink and Michael Boutros -- Methods for homologous recombination in Drosophila / Keith A. Maggert, Wei J. Gong, and Kent G. Golic -- Recombinases and their use in gene activation, gene inactivation, and transgenesis / Johannes Bischof and Konrad Basler -- Cuticle preparation of Drosophila embryos and larvae / Cyrille Alexandre -- Immunolabeling of embryos / H.-Arno J. Müller -- Imaging cellular and molecular dynamics in live embryos using fluorescent proteins / Matthieu Cavey and Thomas Lecuit -- Analysis of neuromuscular junctions : histology and in vivo imaging / Andreas Schmid and Stephan J. Sigrist --Immunolabeling of imaginal discs / Thomas Klein -- Imaging Drosophila pupal wing morphogenesis / Anne-Kathrin Classen ... [et al.] -- Microscopic analysis of the adult Drosophila retina using semithin plastic section / Konstantin Gaengel and Marek Mlodzik -- Fluorescent in situ hybridization protocols in Drosophila embryos and tissues / Eric Lécuyer, Neela Parthasarathy, and Henry M. Krause -- Linear RNA amplification for the production of microarray hybridization probes / Ansgar Klebes and Thomas B. Kornberg -- An overview of the identification, detection, and functional analysis of Drosophila microRNAs / Nicholas S. Sokol -- Extraction and immunoblotting of proteins from embryos / Andreas Wodarz -- Purification of Drosophila protein complexes for mass spectrometry / Christoph Jüschke and Jürgen A. Knoblich -- Mass production of Drosophila embryos and chromatographic purification of native protein complexes / Natascha Kunert and Alexander Brehm -- Flow cytometric analysis of Drosophila cells / Aida Flor A. de la Cruz and Bruce A. Edgar -- Drosophila cell lines as model systems and as an experimental tool / Buzz Baum and Lucy Cherbas -- Appendix : phenotypic markers in Drosophila / Jennifer Childress and Georg Halder.
  • Echinodermata 2005, Springer
    Are echinoderms of interest to biotechnology? / C. Petzelt -- Cell adhesion and communication : a lesson from echinoderm embryos for the exploitation of new therapeutic tools / F. Zito ... [et al.] -- Cell signalling during sea urchin development : a model for assessing toxicity of environmnetal contaminants / C. Angelini ... [et al.] -- Echinoderm reactive oxygen species (ROS) production measured by peroxidase, luminol-enhanced chemiluminescence (PLCL) as an immunotoxicological tool / G. Coteur, B. Danis, P. Dubois -- Monitoring chemical and physical stress using sea urchin immune cells / V. Matranga ... [et al.] --DNA damage and developmental defects after exposure to UV and heavy metals in sea urchin cells and embryos compared to other invertebrates / H.C. Schröder ... [et al.] -- Echinoderms : their culture and bioactive compounds / M.S. Kelly -- Regenerative response and endocrine disrupters in crinoid echinoderms : an old experimental model, a new ecotoxicological test / M.D. Candia Carnevali -- Echinoderm adhesive secretions : from experimental characterization to biotechnological applications / P. Flammang, R. Santos, D. Haesaerts -- Mutable collagenous tissue : overview and biotechnological perspective / I.C. Wilkie -- Bioresources from echinoderms / Y. Yokota.
  • Ecological genomics : 2014, Springer
    "Researchers in the field of ecological genomics aim to determine how a genome or a population of genomes interacts with its environment across ecological and evolutionary timescales. Ecological genomics is trans-disciplinary by nature. Ecologists have turned to genomics to be able to elucidate the mechanistic bases of the biodiversity their research tries to understand. Genomicists have turned to ecology in order to better explain the functional cellular and molecular variation they observed in their model organisms. Ecological genomics covers 3 fields of research that have most benefited from the recent technological and conceptual developments in the field of ecological genomics: the study of life-history evolution and its impact of genome architectures; the study of the genomic bases of phenotypic plasticity and the study of the genomic bases of adaptation and speciation"-- Publisher's description.
  • v. 1. A-L -- v. 2. M-Z.
  • Epidermal growth factor 2005, Springer Protocols
    A historical perspective of EGF receptor and related systems / Francis Edwin ... [et al.] -- Purification and assay of kinase-active EGF receptor from mammalian cells by immunoaffinity chromatography / Gregory J. Wiepz ... [et al.] -- Soluble epidermal growth factor receptor acrydinium-linked immunosorbent assay / Jacqueline M. Lafky, Andre T. Baron, and Nita J. Maihle -- Analysis of epidermal growth factor receptor and interactions with the [alpha] subunit of the stimulatory GTP binding protein of adenylyl cyclase, Gs / Deepti Chaturvedi ... [et al.] -- Regulator of epidermal growth factor signaling : sprouty / Esther Sook Miin Wong and Graeme R. Guy -- Dissecting the epidermal growth factor signal transactivation pathway / Oliver M. Fischer, Stefan Hart, and Axel Ullrich -- A sensitive method to monitor ectodomain shedding of ligands of the epidermal growth factor receptor / Umut Sahin ... [et al.] -- In vitro and in vivo assays of monoubiquitnation of receptor tyrosine kinases / Manachem Katz, Yaron Mosesson, and Yosef Yarden -- Assays to monitor degradation of the EGF receptor / Mirko H.H. Schmidt and Ivan Dikic -- Assessment of degradation and ubiquitination of CXCR4, a GPCR regulated by EGFR family members / Adriano Marchese -- Epithelial cell migration in response to epidermal growth factor / Reema Zeineldin and Laurie G. Hudson -- Motility signaled from EGF receptors and related systems / Alan Wells ... [et al.] -- Methods for determining the proliferation of cells in response to EGFR ligands / Gregory J. Wiepz ... [et al.] -- Clinical advancement of EGFR inhibitors in cancer therapy / Prakash Chinnaiyan and Paul M. Harari.
  • Epigenetics 2013, Springer
    Epigenetics is the phenomenon which fine tunes the processes associated with life, beyond that which is specified by the sequence of the genetic material; DNA. The covalent modification of DNA, DNA associated histones, several non histone proteins as well as non coding RNA coherently operate to establish the epigenetic regulation of gene expression in physiological and pathophysiological conditions. This volume presents contributions from worldwide experts presenting their research and findings, including: the evolution of epigenetic machineries from archaea to higher eukaryotes; role of epigenetics in development and transcription regulation; epigenetic landscape of human disease; a chemical biology approach to understanding epigenetic phenomena; exploration of different small molecules as epigenetic therapies.This volume is aimed at students and researchers of chromatin biology and epigenetics and will also be of interest to a broader pharmaceutical audience.
  • 1. Chloride ATPase Pumps in Epithelia -- 2. Divalent Anion Transport in Crustacean and Molluscan Gastrointestinal Epithelia -- 3. Heavy Metal Transport and Detoxification by Crustacean Epithelial Lysosomes -- 4. Epithelial Calcium Transport in Crustaceans: Adaptation to Intrinsic and Extrinsic Stressors -- 5. The Cellular Basis of Extreme Alkali Secretion in Insects: A Tale of Two Tissues -- 6. H+, Na+, K+, and Amino Acid Transport in Caterpillar and Larval Mosquito Alimentary Canal -- 7. CFTR-Dependent Anion Transport in Airway Epithelia -- 8. Sulfate and Phosphate Transporters in Mammalian Renal and Gastrointestinal Systems -- 9. Role of H+-K+ ATPase, Na+-K+-2Cl⁻ and Na+-Cl⁻-HCO₃ ⁻ Transporters in Vertebrate Small Intestine -- 10. The H+- and H+, K+-ATPases of the Collecting Duct -- 11. Acid/Base Regulation in Renal Epithelia by H,K-ATPases -- 12. Sodium Transport Mechanisms in the Mammalian Nephron -- 13. Renal Acid-Base Regulation Via Ammonia Transport in Mammals -- 14. Hexose Transport Across Mammalian Epithelia -- 15. Amino Acid Transport by Epithelial Membranes -- 16. Molecular Ontology of Amino Acid Transport.
  • Evolution of the genome 2005, ScienceDirect
    Genome size evolution in animals /T. Ryan Gregory --Genome size evolution in plants /Michael D. Bennett and Ilia J. Leitch --Transposable elements /Margaret G. Kidwell --B chromosomes /Juan Pedro M. Camacho --Small-scale gene duplications /John S. Taylor and Jeroen Raes --Large-scale gene and ancient genome duplications /Yves Van de Peer and Axel Meyer --Polyploidy in plants /Jennifer A. Tate, Douglas E. Soltis, and Pamela S. Soltis --Polyploidy in animals /T. Ryan Gregory and Barbara K. Mable --Comparative genomics in eukaryotes /Alan Filipski and Sudhir Kumar --Comparative genomics in prokaryotes /T. Ryan Gregory and Rob DeSalle --Macroevolution and the genome /T. Ryan Gregory.
  • Exocytosis and endocytosis 2008, Springer Protocols
    Vesicular trafficking : molecular tools and targets / Elena V. Vassilieva and Asma Nusrat -- Pharmacological inhibition of endocytic pathways : is it specific enough to be useful? / Andrei I. Ivanov -- In vitro assays to measure SNARE-mediated vesicle fusion / Susanne Kreye, Jörg Malsam, and Thomas H. Söllner -- Imaging Ca²⁺-triggered exocytosis of single secretory granules on plasma membrane lawns from neuroendocrine cells / Thorsten Lang -- FRAP analysis of secretory granule lipids and proteins in the sea urchin egg / Julian L. Wong and Gary M. Wessel -- A cell-free assay for endocytosis of E-cadherin / Toshiaki Sakisaka and Yoshimi Takai -- Cell-surface biotinylation to study endocytosis and recycling of occludin / Noriyuki Nishimura and Takuya Sasaki -- Fractionation of subcellular membrane vesicles of epithelial and nonepithelial cells by OptiPrep density gradient / Xuhang Li and Mark Donowitz -- Identification and characterization of interacting partners of Rab GTPases by yeast two-hybrid analyses / Mark Kail and Angelika Barnekow -- High-throughput analysis of the dynamics of recycling cell surface proteins / Roland Glovers, David E. James, and Adelle C.F. Coster -- Studying phagocytosis by live-cell scintillation proximity assay / Walter Stockinger and Axel Nohturfft -- Transcytosis of polymeric immunoglobin A in polarized Madin-Darby canine kidney cells / Asli Oztan, Christine Rondanino, and Gerard Apodaca -- The use of syntaxin chimeras to study polarized protein trafficking in epithelial cells / Martin B.A. ter Beest -- Targeting the epithelial SNARE machinery by bacterial neurotoxins / Véronique Proux-Gillardeaux and Thierry Galli -- Endocytosis of endothelial cells is regulated by N-ethylmaleimide-sensitive factor / Munekazu Yamakuchi ... [et al.] -- Molecular dissection of HCL secretion in gastric parietal cells using streptolysin O permeabilization / Xia Ding .. [et al.] -- Addressing membrane protein topology using the fluorescence protease protection (FPP) assay / Holger Lorenz, Dale W. Hailey, and Jennifer Lippincott-Schwartz -- Visualizing clathrin-mediated IgE receptor internalization by electron and atomic force microscopy / Alan R. Burns ... [et al.] -- Analyzing endosomes in nonsectioned cells by transmission electron microscopy / Willem Stoorvogel -- Imaging exocytosis of single insulin secretory granules with TIRF microscopy / Shinya Nagamatsu and Mica Ohara-Imaizumi -- Reconstitution of depolarization and Ca²⁺-evoked secretion in Xenopus oocytes monitored by membrane capacitance / Roy Cohen, Bernhard M. Schmitt, and Daphne Atlas -- Low-noise recording of single-vesicle capacitance steps in cell-attached patches / Vitaly Klyachko, Zhenjie Zhang, and Meyer Jackson -- Good practices in single-cell amperometry / David J. Machado, Mónica S. Montesinos, and Ricardo Borges -- Analysis of single-vesicle exocytotic events recorded by amperometry / Eugene V. Mosharov -- Application of RNAi technology and fluorescent protein markers to study membrane traffic in Caenorhabditis elegans / Dmitry Poteryaev and Anne Spang -- FM 1-43 labeling of synaptic vesicle pools at the Drosophila neuromuscular junction / Patrik Verstreken, Tomoko Ohyama, and Hugo J. Bellen -- Probing E-cadherin endocytosis by morpholino-mediated Rab5 knockdown in zebrafish / Florian Ulrich and Carl-Philipp Heisenberg -- Quantifying endocytosis in vivo using intravital two-photon microscopy / Ruben M. Sandoval and Bruce A. Molitoris.
  • Extracellular DNA as Matrix Component in Microbial Biofilms / Wen-Chi Chiang and Tim Tolker-Nielsen -- Gene Transfer Agents and Defective Bacteriophages as Sources of Extracellular Prokaryotic DNA / Andrew S. Lang and J. Thomas Beatty -- Roles of Extracellular DNA in Bacterial Ecosystem / Katsuji Tani and Masao Nasu -- Stable Extracellular DNA: A Novel Substrate for Genetic Engineering that Mimics Horizontal Gene Transfer in Nature / Shinya Kaneko and Mitsuhiro Itaya -- Extracellular Nucleic Acids of the Marine Phototrophic Bacterium Rhodovulum sulfidophilum and Related Bacteria: Physiology and Biotechnology / Yo Kikuchi -- Systemic RNAi in C. elegans from the Viewpoint of RNA as Extracellular Signals / Lisa Timmons -- Circulating Nucleic Acids in Health and Disease / E. Y. Rykova, P. P. Laktionov and V. V. Vlassov -- Circulating MicroRNAs in Cancer / Patrick S. Mitchell and Muneesh Tewari -- Biology and Diagnostic Applications of Cell-Free Fetal Nucleic Acids in Maternal Plasma / Jason C. H. Tsang and Y. M. Dennis Lo -- The Biology of Circulating Nucleic Acids in Plasma and Serum (CNAPS) / P. B. Gahan and M. Stroun -- Modulation and Regulation of Gene Expression by CpG Oligonucleotides / Dennis Klinman and Sven Klaschik -- Immune Recognition of Nucleic Acids and Their Metabolites / Shohei Koyama, Shizuo Akira and Ken J. Ishii.
  • Fibrogenesis 2005, Springer
    Tissue scarring: lessons from wound healing / Mohammed S. Razzaque ... [et al.] -- Pathological significance of renal expression of proinflammatory molecules / Takashi Wada ... [et al.] -- Oxidative stress, lipoproteins, and angiotensin II-the unholy triade in the pathogenesis of renal fibrosis / Jan Galle, Thomas Quaschning and Stefan Seibold -- Involvement of NF-kB in renal inflammation and sclerosis / Laurent Baud -- Low-density lipoprotein and glomerulosclerosis / Hyun Soon Lee -- Molecular developments in the treatment of renal fibrosis / Gavin J. Becker and Tim D. Hewitson -- Myocardial infarction and cardiac fibrogenesis / Shozo Kusachi and Yoshifumi Ninomiya -- Cardiac fibrosis and aging / Serge Masson ... [et al.] -- Matrix remodeling and atherosclerosis effect of age / Ladislas Robert -- Molecular and cellular aspect of liver fibrosis / Norifumi Kawada --Recent therapeutic developments in hepatic fibrosis / Ichiro Shimizu -- Reversibility of liver fibrosis: role of matrix metalloproteinases / Isao Okazaki ... [et al.] -- Can manipulation of apoptotic cell death benefit tissue scarring? / Wesam Ahmed, Mohammed S. Razzaque, and Takashi Taguchi -- Pulmonary fibrogenesis: the role of apoptosis and its clinical potentials / Kazuyoshi Kuwano, Naoki Hagimata, and Nobuyuki Hara -- Silica-induced inflammatory mediators and pulmonary fibrosis / Andrea K. Hubbard ... [et al.].
  • Flow cytometry protocols. 2nd ed. 2004, Springer Protocols
    Flow cytometry : an introduction / Alice L. Givan -- Multiparameter flow cytometry of bacteria / Howard M. Shapiro and Gerhard Nebe-von-Caron -- Multiparameter data acquisition and analysis of leukocytes / Carleton C. Stewart and Sigrid J. Stewart -- Flow cytometric analysis of kinase signaling cascades / Omar D. Perez, Peter O. Krutzik, and Garry P. Nolan -- Cytokine flow cytometry / Holden T. Maecker -- Use of cell-tracking dyes to determine proliferation precursor frequencies of antigen-specific T cells / Alice L. Givan ... [et al.] -- Assessment of lymphocyte-mediated cytotoxicity using flow cytometry / Luzheng Liu ... [et al.] -- Multiparametric analysis of apoptosis by flow and image cytometry / William G. Telford, Akira Komoriya, and Beverly Z. Packard -- Detection and enrichment of hematopoietic stem cells by side population phenotype / Shannon S. Eaker ... [et al.] -- Hematopoietic stem cell characterization by Hoechst 33342 and Rhodamine 123 staining / Ivan Bertoncello and Brenda Williams --Phenotypic and functional analyses of human CD34neg hematopoietic precursors from mobilized peripheral blood / Douglas C. Dooley and Barbara K. Oppenlander -- Multiparameter flow cytometry of fluorescent protein reporters / Teresa S. Hawley ... [et al.] -- Analysis of fluorescent protein expressing cells by flow cytometry / Steven C. Pruitt, Lawrence M. Mielnicki, and Carleton C. Stewart -- Integrative flow cytometric and microarray approaches for use in transcriptional profiling / David W. Galbraith, Rangasamy Elumalai, and Fang Cheng Gong -- Flow cytometric analysis of fluorescence resonance energy transfer : a tool for high-throughput screening of molecular interactions in living cells / Francis Ka-Ming Chan and Kevin L. Holmes -- Design of a fluorescence-activated cell sorting-based mammalian protein-protein interaction trap / Sam Lievens ... [et al.] -- Flow cytometric screening of yeast surface display libraries / Michael Feldhaus and Robert Siegel -- Fluorescence resonance energy transfer based HIV-1 virion fusion assay -- Marielle Cavrois ... [et al.] -- Cell cycle analysis of asynchronous populations / Michael G. Ormerod -- Solid tumor DNA content analysis / Adel K. El-Naggar and Philippe Vielh --Concurrent flow cytometric analysis of DNA and RNA / Adel K. El-Naggar -- Telomere length measurement by fluorescenece in situ hybridization and flow cytometry / Veena Kapoor and William G. Telford -- Small lasers in flow cytometry / William G. Telford -- Viable infectious cell sorting in a BSL-3 facility / Stephen P. Perfetto ... [et al.].
  • Fluorescence in situ Hybridization (FISH), Basic principles and methodology -- Fluorescence in situ hybridization on DNA halo preparations and extended chromatin fibres -- Detection of nascent RNA transcripts by fluorescence in situ hybridization -- Fluorescence in situ hybridization analysis of formalin fixed paraffin embedded tissues, including tissue microarrays -- Fluorescence in situ Hybridization (FISH) on tissue cryosections -- Multiplex fluorescence in situ hybridization (M-FISH) -- Optical mapping of protein-DNA complexes on chromatin fibers -- 3D-FISH on cultured cells combined with immunostaining -- The Comet-FISH assay for the analysis of DNA damage and repair -- Direct in situ hybridization with oligonucleotide functionalized quantum dot probes -- LNA-FISH for detection of MicroRNAs in frozen sections -- Chromosome orientation fluorescence in situ hybridization or strand-specific FISH -- Combinatorial oligo FISH: directed labeling of specific genome domains in differentially fixed cell material and live cells -- Simultaneous visualization of FISH signals and bromo-deoxyuridine incorporation by formamide-free DNA denaturation -- CryoFISH: fluorescence in situ hybridization on ultrathin cryosections -- Characterization of chromosomal rearrangements using multicolor-banding (MCB/m-band) -- Visualizing nucleic acids in living cells by fluorescence in vivo hybridization -- Quality control in FISH as part of a laboratory's quality management system -- FlashFISH: "same day" prenatal diagnosis of common chromosomal aneuploidies -- FISH for pre-implantation genetic diagnosis -- PNA-FISH on human sperm -- POD-FISH: a new technique for parental origin determination based on copy number variation polymorphism -- Sequence-based high resolution chromosomal comparative genomic hybridization (CGH) -- ImmunoFISH on isolated nuclei from paraffin-embedded biopsy material -- Fluorescence in situ hybridization on 3D cultures of tumor cells -- Simultaneous ultrasensitive subpopulation staining/hybridization in situ (SUSHI) in HIV-1 disease monitoring -- Detection of prokaryotic cells with fluorescence in situ hybridization -- FISH as a tool to investigate chromosome behavior in budding yeast -- FISH on chromosomes derived from the snail model organism biomphalaria glabrata -- Fluorescence in situ hybridization with bacterial artificial chromosomes (BACs) to mitotic heterochromatin of drosophila -- Three-dimensional fluorescence in situ hybridization in mouse embryos using repetitive probe sequences -- Fluorescence in situ hybridization (FISH) for genomic investigations in rat -- Fluorescence in situ hybridization on early porcine embryos -- FISH on 3D preserved bovine and murine preimplantation embryos.
  • Functional proteomics 2008, Springer Protocols
    A brief summary of the different types of mass spectrometers used in proteomics / Christine Schaeffer-Reiss -- Experimental setups and considerations to study microbial interactions / Petter Melin -- Plant proteomics / Eric Sarnighausen and Ralf Reski -- Methods for human CD8+ T lymphocyte proteome analysis / Lynne Thadikkaran ... [et al.] -- Label-free proteomics of serum / Natalia Govorukhina, Peter Horvatovich, and Rainer Bischoff -- Flow cytometric analysis of cell membrane microparticles / Monique P. Gelderman and Jan Simak -- Exosomes / Joost P.J.J. Hegmans, Peter J. Gerber, and Bart N. Lambrecht -- Toward a full characterization of the human 20S proteasome subunits and their isoforms by a combination of proteomic approaches / Sandrine Uttenweiler-Joseph ... [et al.] -- Free-flow electrophoresis of the human urinary proteome / Mikkel Nissum and Robert Wildgruber -- Versatile screening for binary protein-protein interactions by yeast two-hybrid mating / Stef J.F. Letteboer and Ronald Roepman -- Native fractionation : isolation of native membrane-bound protein complexes from porcine rod outer segments using isopycnic density gradient centrifugation / Magdalena Swiatek-de Lange, Bernd Müller, and Marius Ueffing -- Mapping the signaling pathways by functional interaction proteomics / Alex von Kriegsheim, Christian Preisinger, and Walter Kolch -- Selection of recombinant antibodies by eukaryotic ribosome display / Mingyue He and Michael J. Taussig -- Production of protein arrays by cell-free systems / Mingyue He and Michael J. Taussig -- Nondenaturing mass spectrometry to study noncovalent protein/protein and protein/ligand complexes : technical aspects and application to the determination of binding stoichiometries / Sarah Sanglier ... [et al.] --Protein processing characterized by a gel-free proteomics approach / Petra Van Damme ... [et al.] -- Identification and characterization of N-glycosylated proteins using proteomics / David S. Selby ... [et al.] -- Data standards and controlled vocabularies for proteomics / Lennart Martens, Luisa Montecchi Palazzi, and Henning Hermjakob -- The PRIDE proteomics identifications database : data submission, query, and dataset comparison / Philip Jones and Richard Côté -- Searching the protein interaction space through the MINT database / Andrew Chatr-aryamontri ... [et al.] -- PepSeeker : mining information from proteomic data / Jennifer A. Siepen, Julian N. Selley, and Simon J. Hubbard -- Toward high-throughput and reliable peptide identification via MS/MS spectra / Jian Liu -- MassSorter : peptide mass fingerprinting data analysis / Ingvar Eidhammer, Harald Barsnes and Svein-Ole Mikalsen -- Database similarity searches / Frédéric Plewniak -- Protein multiple sequence alignment / Chuong B. Do and Kazutaka Katoh -- Discovering biomedical knowledge from the literature / Jasmin Šaríc, Henriette Engelken, and Uwe Reyle -- Protein subcellular localization prediction using artificial intelligence technology / Rajesh Nair and Burkhard Rost -- Protein functional annotation by homology / Raja Mazumder, Sona Vasudevan, and Anastasia N. Nikolskaya -- Designability and disease / Philip Wong and Dmitrij Frishman -- Prism : protein-protein interaction prediction by structural matching / Ozlem Keskin, Ruth Nussinov, and Attila Gursoy -- Prediction of protein interaction based on similarity of phylogenetic trees / Florencio Pazos ... [et al.] -- Large multiprotein structures modeling and simulation : the need for mesoscopic models / Antoine Coulon, Guillaume Beslon, and Olivier Gandrillon -- Dynamic pathway modeling of signal transduction networks : a domain-oriented approach / Holger Conzelmann and Ernst-Dieter Gilles.
  • G protein-coupled receptors 2006, CRCnetBASE
  • Gene biotechnology. 2nd ed. 2004, CRCnetBASE
  • Gene therapy protocols. 3rd ed. v. 1-, 2008-, Springer Protocols
    v. 1. Production and in vivo applications of gene transfer vectors. Preparation and quantification of pseudotyped retroviral vector / Hong Yu and Young Jik Kwon. Production of retroviral vectors for clinical use / Kenneth Cornetta, Lilith Reeves, and Scott Cross. Methods for the production of helper-dependent adenoviral vectors / Donna J. Palmer and Philip Ng. Methods for the production of first generation adenoviral vectors / Donna J. Palmer and Philip Ng. Large-scale production of recombinant adeno-associated viral vectors / Alejandro Negrete and Robert M. Kotin. Construction and production of recombinant herpes simplex virus vectors / William F. Goins ... [et al.] Plasmid-based gene transfer in mouse skeletal muscle by electroporation / Jonathan D. Schertzer and Goron S. Lynch. Chitosan nanoparticle-mediated gene transfer / Dongwon Lee and Shyam S. Mohapatra. PEG-PEI copolymers for oligonucleotide delivery to cells and tissues / Gordon J. Lutz, Shashank R. Sirsi, and Jason H. Williams. Non-viral gene delivery with cationic liposome-DNA complexes / Kai K. Ewert ... [et al.] Applications of lentiviral vectors in noninvasive molecular imaging / Abhijit De ... [et al.] Retroviral modification of mesenchymal stem cells for gene therapy of hemophilia A / Christopher B. Doering. Transduction of murine hematopoietic stem cells and in vivo selection of gene-modified cells / Lucienne M. Ide, Elisabeth Javazon, and H. Trent Spencer. Assessment of CFTR function after gene transfer in vitro and in vivo / Uta Griesenbach ... [et al.] Oncolytic adenoviruses for cancer gene therapy / Ta-Chiang Liu, Stephen H. Thorne, and David H. Kirn. Design of trans-splicing adeno-associated viral vectors for Duchenne muscular dystrophy gene therapy / Yi Lai ... [et al.] Prevention of type 1 diabetes in NOD mice by genetic engineering of hematopoietic stem cells / Jessamyn Bagley, Charoui Tian, and John Iacomini. Lentiviral vector delivery of siRNA and shRNA encoding genes into cultured and primary hematopoietic cells / Mingjie Li and John J. Rossi. Nanoparticle-mediated gene delivery to the lung / Rajagopal Ramesh. Retroviral-mediated gene therapy for the differentiation of primary cells into a mineralizing osteoblastic phenotype / Jennifer E. Phillips and Andrés J. García. In vivo siRNA delivery to the mouse hypothalamus shows a role of the co-chaperone XAP2 in regulating TRH transcription / Stéphanie Decherf, Zahra Hassani, and Barbara A. Demeneix. Efficient retroviral gene transfer to epidermal stem cells / Pedro Lei and Stelios T. Andreadis.
  • General principles of retrovirus vector design / Tammy Chang and Jiing-Kuan Yee -- Strategies for retrovirus-based correction of severe, combined immunodeficiency (SCID) / Alain Fischer, Salima Hacein-Bey-Abina, and Marina Cavazzana-Calvo -- Retrovirus and lentivirus vector design and methods of cell conditioning / Samantha Cooray, Steven J. Howe, and Adrian J. Thrasher -- Analysis of the clonal repertoire of gene-corrected cells in gene therapy / Anna Paruzynski ... [et al.] -- Developing novel lentiviral vectors into clinical products / Anna Leath and Kenneth Cornetta -- Lentivirus vectors in [beta]-thalassemia / Emmanuel Payen ... [et al.] -- Gene therapy for chronic granulomatous disease / Elizabeth M. Kang and Harry L. Malech -- Alternative splicing caused by lentiviral integration in the human genome / Arianna Moiani and Fulvio Mavilio -- Genotoxicity assay for gene therapy vectors in tumor prone mice / Eugenio Montini and Daniela Cesana -- Lentiviral hematopoietic cell gene therapy for X-linked adrenoleukodystrophy / Nathalie Cartier ... [et al.] -- Retroviral replicating vectors in cancer / Christopher R. Logg ... [et al.] -- Adeno-associated virus vectorology, manufacturing, and clinical applications / Joshua C. Grieger and R. Jude Samulski -- Gene delivery to the retina : from mouse to man / Jean Bennett, Daniel C. Chung, and Albert Maguire -- Generation of hairpin-based RNAi vectors for biological and therapeutic application / Ryan L. Boudreau and Beverly L. Davidson -- Recombinant adeno-associated viral vector reference standards / Philippe Moullier and Richard O. Snyder -- NIH oversight of human gene transfer research involving retroviral, lentiviral, and adeno-associated virus vectors and the role of the NIH Recombinant DNA Advisory Committee / Marina O'Reilly ... [et al.] -- Regulatory structures for gene therapy medicinal products in the European Union / Bettina Klug ... [et al.].
  • Genomics in the sea urchin : new perspectives on a perennial model system / Katherine M. Buckley amd Jonathan P. Rast -- Genome mapping and genomics of Caenorhabditis elegans / Jonathan Hodgkin, Michael Paulini, and mary Ann Tuli -- Genome mapping and genomics in Drosophila / Boris Adryan and Steven Russell -- Genome structure, functional genomics, and proteomics in ascidians / Yasunori Sasakura, Nicolas Sierro, Kenta Nakai, Kazuo Inaba, and takehiro G. Kusakabe -- Punching above their weight : the compact genomes of pufferfishes / Brian Cusack and Hugues Roest Crollius -- Medaka genomics and the methods and resources for decoding genomic functions / Tetsuaki Kimura, Yasuhiro Kamei, Yusuke Takehana, Takao Sasado, and Kiyoshi Naruse -- Xenopus genomics and genetics : progress and prospects / Amy K. Sater and Michael J. Gilchrist -- Mouse genome mapping and genomics / Paul Denny -- Rat genome mapping and genetics / Claude Szpirer and Göran Levan.
  • Genomes. 2nd ed. 2002, NCBI Bookshelf
  • Genomics protocols. 2nd ed. 2008, Springer Protocols
    Protein profiling based on two-dimensional difference gel electrophoresis / Gert Van den Bergh and Lutgarde Arckens -- Quantitative protein profiling by mass spectrometry using isotope-coded affinity tags / Arsalan S. Haqqani, John F. Kelly, and Danica B. Stanimirovic -- Quantitative protein profiling by mass spectrometry using label-free proteomics / Arsala S. Haqqani, John F. Kelly, and Danica B. Stanimirovic -- Using 2D-LC-MS/MS to identify Francisella tularensis peptides in extracts from an infected mouse macrophage cell line / John F. Kelly and Wen Ding -- Baculovirus expression vector system : an emerging host for high-throughput eukaryotic protein expression / Binesh Shrestha, Carol Smee, and Opher Gileadi -- Coimmunoprecipitation and proteomic analyses / S. Fabio Falsone, Bernd Gesslbauer, and Andreas J. Kungl -- Tandem affinity purification combined with mass spectrometry to identify components of protein complexes / Peter Kaiser ... [et al.] -- Mammalian two-hybrid assay for detecting protein-protein interactioins in vivo / Runtao He and Xuguang Li -- Detection of protein-protein interactions in live cells and animals with split firefly luciferase protein fragment complementation / Victor Villalobos, Snehal Naik, and David Piwnica-Worms -- Subcellular localization of intracellular human proteins by construction of tagged fusion proteins and transient expression in COS-7 cells / John E. Collins -- GeneFAS : a tool for the prediction of gene function using multiple sources of data / Trupti Joshi ... [et al.] --Comparative genomics-based prediction of protein function / Toni Gabaldón -- Design, manufacture, and assay of the efficacy of siRNAs for gene silencing / Louise A. Dawson and Badar A. Usmani.Whole genome amplification with Phi29 DNA polymerase to enable genetic or genomic analysis of samples of low DNA yield / Kaisa Silander and Janna Saarela -- Scanning for DNA variants by denaturant capillary electrophoresis / Per O. Ekstrøm -- Identification of SNPs, or mutations in sequence chromatograms / Nicole Draper -- BeadArray-based genotyping / Helen Butler and Jiannis Ragoussis -- Microsattelite-based candidate gene linkage analysis studies / Cathryn Mellersh -- Full complexity genomic hybridization on 60-mer oligonucleotide microarrays for array comparative genomic hybridization (aCGH) / Alexei Protopopov, Bin Feng, and Lynda Chin -- Detection of copy number changes at multiple loci in DNA prepared from formalin-fixed, paraffin-embedded tissue by multiplex ligation -dependent probe amplification / Minoru Takata -- Application of microarrays for DNA methylation profiling / Axel Schumacher, Andreas Weinhäusl, and Arturas Petronis -- Genomewide identification of protein binding locations using chromatin immunoprecipitation coupled with microarray / Byung-Kwan Cho, Eric M. Knight, and Bernhard Ø. Palsson -- Transcriptional profiling of small samples in the central nervous system / Stephen D. Ginsberg -- Quantitative expression profiling of RNA from formalin-fixed, paraffin-embedded tissues using randomly assembled bead arrays / Marina Bibikova ... [et al.] -- Expression profiling of microRNAs in cancer cells : technical considerations / Mouldy Sioud and Lina Cekaite -- Identification of disease biomarkers by profiling of serum proteins using SELDI-TOF mass spectrometry / Sigrun Langbein -- The applicability of a cluster of differentiation monoclonal antibody microarray to the diagnosis of human disease / Peter Ellmark ... [et al.] --
  • Glioma signaling 2013, Springer
  • Glycobiology protocols 2006, Springer Protocols
    Gene expression analysis of glycosylation-related genes by real-time polymerase chain reaction / Juan J. Garcia-Vallejo ... [et al.] -- Analysis of the glycodynamics of primary osteoblasts and bone cancer cells / Inka Brockhausen-Schutzbach, Xiaojing Yang, and Mark Harrison -- Micromethods for the characterization of lipid a core and o-antigen lipopolysaccharide / Cristina L. Marolda ... [et al.] -- Assays for a galactosyltransferase involved in the assembly of the O7 antigen repeat unit of escherichia coli / Inka Brockhausen-Schutzbach ... [et al.] -- High-throughput quantitation of metabolically labeled anionic glycoconjugates by scintillation proximity assay utilizing binding to cationic dyes / Karen J. Rees-Milton and Tassos P. Anastassiades -- Quantitative analysis of mucins in mucosal secretions using indirect ELISA / Pablo Argueso and Ilene K. Gipson -- Molecular dissection of the mouse zona pellucida: an electron microscopic perspective utilizing high-resolution colloidal-gold labeling methods / Frederick W. K. Kan -- Soluble adamantly glycosphingolipid analogs as probes of glycosphingolipid function / Clifford Lingwood ... [et al.] -- Diagnosis of Krabbe disease by use of a natural substrate / John W. Callahan and Marie-Anne Skomorowski -- In vitro assays of the functions of calnexin and calreticulin, lectin-chaperones of the endoplasmic reticulum / Breanna S. Ireland, Monika Niggemann, and David B. Williams -- Quantitative measurement of selectin-ligand interactions: assays to identify a sweet pill in a library of carbohydrates / Mark E. Beauharnois, Sriram Neelamegham, and Khushi L. Matta -- Sialic acid-binding specificities of siglecs / Nadine Bock and Soerge Kelm.The application of fluorophore-assisted carbohydrate -- Electrophoresis for the study of the dolichol pyrophosphate-linked oligosaccharides pathway in cell cultures and animal tissues / Ningguo Gao -- Partial purification of mannosylphosphorylundecaprenol synthase from micrococcus luteus: a useful enzyme for the biosynthesis of a variety of mannosylphosphorylpolyisoprenol products / Jeffrey S. Rush and Charles J. Waechter -- Assay of dolichyl-phospho-mannose synthase reconstituted in a lipid matrix / John S. Schutzbach -- O-mannosylation in mammalian cells / Tamao Endo and Hiroshi Manya -- Methods for analysis of unusual forms of o-glycosylation / Aleksandra Nita-Lazar and Robert S. Haltiwanger -- Structural analysis of naturally occurring sialic acids / Johannis P. Kamerling and Gerrit J. Gerwig -- Non-radioactive trans-sialidase screening assay / Silke Schrader and Roland Schauer -- Structural determination of o-glycans by tandem mass spectrometry / Catherine Robbe, Jean-Claude Michalski, and Calliope Capon -- Detailed structural analysis of n-glycans released from glycoproteins in SDS-page gel bands using HPLC combined with exoglycosidase array digestions / Louise Royle ... [et al.] -- Molecular modeling of glycosyltransferases / Anne Imberty ... [et al.] -- Galactoside_2,6-sialyltransferase (st6gal.i) and the sialyl_2,6-galactosyl-linkage in tissues and cell lines / Fabio Dall'Olio, Nadia Malagolini, and Mariella Chiricolo -- Visualizing intracellular distribution and activity of core 2 _(1,6)n-acetylglucosaminyltransferase-I (C2GNT-I) in living cells / Maelle Prorok-Hamon, Sylvie Mathieu, and Assou El-Battari --
  • ER-bound steps in the biosynthesis of G protein-coupled receptors /Christian Nanoff and Michael Freissmuth --Role of chaperones in G Protein coupled receptor signaling complex assembly /Denis J. Dupré, Maha M. Hammad, Patrick Holland and Jaime Wertman --GPCR oligomerization: contribution to receptor biogenesis /Kathleen Van Craenenbroeck --The functional size of GPCRs: monomers, dimers or tetramers? /Darlaine Pétrin and Terence E. Hébert --Regulation of post-Golgi traffic of G protein-coupled receptors /Guangyu Wu --Regulated GPCR trafficking to the plasma membrane: general issues and the CCR5 chemokine receptor example /Hamasseh Shirvani, Gabriel Gätà and Stefano Marullo --Regulatory processes governing the cell surface expression of LH and FSH receptors /Deborah L. Segaloff --Chaperone-mediated assembly of G protein complexes /Barry M. Willardson and Christopher M. Tracy --Synthesis and assembly of G protein [beta][gamma] dimers: comparison of in vitro and in vivo studies /Jane Dingus and John D. Hildebrandt --Preferential assembly of G-[alpha][beta][gamma] complexes directed by the [gamma] subunits /Janet D. Robishaw --G Protein trafficking /Philip B. Wedegaertner --Differential assembly of GPCR signaling complexes determines signaling specificity /Pascal Maurice, Abla Benleulmi-Chaachoua and Ralf Jockers --GPCR and voltage-gated calcium channels (VGCC) signaling complexes /Christophe Altier --Pharmacological chaperones correct misfolded GPCRs and rescue function: protein trafficking as a therapeutic target /Guadalupe Maya-Núñez, Alfredo Ulloa-Aguirre, Jo Ann Janovick and P. Michael Conn.
  • Green fluorescent protein 2002, Springer Protocols
  • "Offering a molecular perspective not available 20 years ago, [this edition] provides physical and chemical data on proteins, nucleic acids, lipids, and carbohydrates. Presented in an organized, concise, and simple-to-use format, this popular reference allows quick access to the most frequently used data. Covering a wide range of topics, from classical biochemistry to proteomics and genomics, it also details the properties of commonly used biochemicals, laboratory solvents, and reagents." --excerpts from book jacket.
  • "Reflecting the milestones in the field that have occurred since the publication of the first edition, this book provides an updated tool kit that incorporates conventional as well as modern approaches to tackling biological and medicinal research in the post genomic era. The authors have evaluated, revised, and sometimes replaced all protocols with more efficient, reliable, or simpler ones. The book is also completely reorganized and covers topics of modern "omics" approaches, including genomics, proteomics, and metabolomics. This is followed coverage of the Manipulation of Biological Systems, including RNAi, and the use of microscopy"--Provided by publisher.
  • Alterations of Neurotransmitter Receptors in Schizophrenia: Evidence from Postmortem Studies / L. V. Kristiansen, R. M. Cowell, M. Biscaia, R. E. McCullumsmith and J. H. Meador-Woodruff -- An Overview and Current Perspective on Family Studies of Schizophrenia / L. E. DeLisi -- Auditory Cortex Anatomy and Asymmetry in Schizophrenia / J. F. Smiley -- Cholinergic Mechanisms in Schizophrenia / T. J. Raedler and R. Freedman -- Cortical Dopamine in Schizophrenia / A. Abi-Dargham -- Dysbindin-1 and Its Protein Family With Special Attention to the Potential Role of Dysbindin-1 in Neuronal Functions and the Pathophysiology of Schizophrenia / K. Talbot, W.- Y. Ong, D. J. Blake, J. Tang and N. Louneva, et al. -- Early-Stage Visual Processing Deficits in Schizophrenia / P. D. Butler -- Event-Related Potentials (ERPs) in the Study of Schizophrenia: How Preclinical ERP Studies have Contributed to our Understanding of Schizophrenia / J. M. Phillips, C. R. Maxwell, R. S. Ehrlichman and S. J. Siegel -- G72/G30 in Neuropsychiatric Disorders / J. Shi, L. Cheng, E. S. Gershon and C. Liu -- Glutamatergic Approaches to the Conceptualization and Treatment of Schizophrenia / J. Kantrowitz and D. C. Javitt -- Hippocampus / S. Heckers -- Magnetic Resonance Spectroscopy / P. Milev, S. Miranowski and K. O. Lim -- Neuregulin 1 and Schizophrenia / Y.-J. J. Chen, L. W. Role and D. A. Talmage -- Redox Dysregulation in Schizophrenia: Genetic Susceptibility and Pathophysiological Mechanisms / K. Q. Do, P. Bovet, J. H. Cabungcal, P. Conus and R. Gysin, et al. -- Synaptic Vesicle Associated Proteins and Schizophrenia / H. T. Kao and B. Porton -- The Neurobiology of Negative Symptoms and the Deficit Syndrome / B. A. Fischer, B. Kirkpatrick and W. T. Carpenter -- The Role of Prefrontal Abnormalities in Schizophrenia / M. J. Hoptman and K. A. Nolan.
  • Harper's Illustrated biochemistry 2012 (29th ed.)., AccessMedicine
  • The expanding tool kit for hematopoietic stem cell research / William Tse and Kevin D. Bunting -- Isolation of quiescent murine hematopoietic stem cells by homing properties / Tarja A. Juopperi and Saul J. Sharkis -- Mobilization of hematopoietic stem and progenitor cells in mice / Simon N. Robinson and Ronald P. van Os -- Transmigration of human CD34⁺ cells / Seiji Fukuda and Louis M. Pelus -- Flow cytometry-based cell cycle measurement of mouse hematopoietic stem and progenitor cells / Hongmei Shen, Matthew Boyer, and Tao Cheng -- Analysis of apoptosis in hematopoietic stem cells by flow cytometry / William G. Kerr -- In vitro hematopoietic differentiation of murine embryonic stem cells / Jinhua Shen and Cheng-Kui Qu -- Hematopoietic development of human embryonic stem cells in culture / Xinghui Tian and Dan S. Kaufman -- In vitro human T cell development directed by notch-ligand interactions / Génève Awong, Ross N. La Motte-Mohs, and Juan Carlos Zuñiga-Pflücker -- In vitro assays for cobblestone area-forming cells, LTC-IC, and CFU-C / Ronald P. van Os, Bertien Dethmers-Ausema, and Gerald de Haan -- Hematopoietic stem cell transplant in mice by intra-femoral injection / Yuxia Zhan and Yi Zhao -- Hematopoietic stem cell transplant into non-myeloblated W/Wv mice to detect steady-state engraftment defects / Zhengqi Wang and Kevin D. Bunting -- Isolation and functional characterization of side population stem cells / Jonathan B. Johnnidis and Fernando D. Camargo --Transplantation of chimeric fetal liver to study hematopoiesis / Sigrid Eckardt and K. John McLaughlin -- Immunodeficient mouse models to study human stem cell-mediated tissue repair / Ping Zhou ... [et al.] -- Retroviral transduction of murine hematopoietic stem cells / Peter Haviernik, Yi Zhang, and Kevin D. Bunting -- Lentiviral gene transduction of mouse and human stem cells / Zhaohui Ye, Xiaobing Yu, and Linzhao Cheng -- Retroviral integration site analysis in hematopoietic stem cells / Olga S. Kustikova, Christopher Baum, and Boris Fehse -- A detailed protocol for bacterial artificial chromosome recombineering to study essential genes in stem cells / Andriy Tsyrulnyk and Richard Moriggl -- Bioluminescence imaging of hematopoietic stem cell repopulation in murine models / Yuan Lin ... [et al.]
  • Hepatocytes 2010, Springer Protocols
    1. General review on in vitro hepatocyte models and their applications / Christiane Guguen-Guillouzo and Andre Guillouzo -- 2. Human foetal hepatocytes / Anne Weber ... [et al.] -- 3. Isolation and culture of primary hepatocytes from resected human liver tissue / Edward L. LeCluyse and Eliane Alexandre -- 4. Optimisation of the cryopreservation of primary hepatocytes / Nicola J. Hewitt -- 5. Cryopreservation of human hepatocytes for clinical use / Ragai R. Mitry, Sharon C. Lehec, and Robin D. Hughes -- 6. Hepatocyte differentiation / Katy M. Olsavsky Goyak, Elizabeth M. Laurenzana, and Curtis J. Omiecinski -- 7. Reversible manipulation of apoptosis sensitivity in cultured hepatocytes by matrix-mediated manipulation of signaling activities / Patricio Godoy ... [et al.] -- 8. Markers and signaling factors for stem cell differentiation to hepatocytes / Frédéric Lemaigre -- 9. Hepatic stem cells / Robert E. Schwartz and Catherine Verfaillie -- 10. Hepatic stem cells and liver development / Nalu Navarro-Alvarez, Alejandro Soto-Gutierrez, and Naoya Kobayashi -- 11. Generation of hepatocytes from human embryonic stem cells / Neta Lavon -- 12. Isolation and culture of adult human liver progenitor cells / Sabine Gerbal-Chaloin ... [et al.] -- 13. The HepaRG cell line / Marie-Jeanne Marion, Olivier Hantz, and David Durantel -- 14. Transdifferentiation of pancreatic cells to hepatocytes / Chia-Ning Shen and David Tosh -- 15. Evaluation of drug metabolism, drug-drug interactions and in vitro hepatotoxicity with cryopreserved human hepatocytes / Albert P. Li -- 16. The use of human hepatocytes to investigate drug metabolism and CYP enzyme induction / Sylvie Klieber ... [et al.] -- 17. The use of hepatocytes to investigate UDP-glucuronosyltransferases and sulfotransferases / Sylvie Fournel-Gigleux ... [et al.] -- 18. The use of hepatocytes to investigate drug uptake transporters / Kazuya Maeda and Yuichi Sugiyama -- 19. Metabonomic studies on human hepatocyte in primary culture / Vincent Croizmarie ... [et al.] -- 20. The application of HepRG cells in evaluation of cytochrome P450 induction properties of drug compounds / Tommy B. Andersson -- 21. The use of hepatocytes to investigate drug toxicity / María José Gómez-Lechón, José V. Castell, Maria Teresa Donato -- 22. The use of human hepatocytes to investigate bile acid synthesis / Ewa C.S. Ellis and Lisa-Mari Nilsson -- 23. The use of human hepatocytes to investigate blood coagulation factor / Christine Biron-Andréani ... [et al.] -- 24. Use of human hepatocytes to investigate HCV infection / Lydiane Pichard-Garcia ... [et al.] -- 25. The use of hepatocytes to investigate HDV infection / Camille Sureau -- 26. Rodent models of liver repopulation / Helène Gilgenkrantz -- 27. Chimeric mice with humanized liver / Stephen C. Strom, Julio Davila, and Markus Grompe -- 28. Bioartificial liver support systems / Gesine Pless -- 29. Human hepatocyte transplantation / Anil Dhawan ... [et al.].
  • Hormone assays in biological fluids 2006, Springer Protocols
    Immunoassay techniques / Michael J. Wheeler -- High-performance liquid chromatography for hormone assay / John W. Honour -- Gas chromatography-mass spectrometry / John W. Honour -- An introduction to PCR techniques / Gill Rumsby -- Methods for the investigation of thyroid function / Christine R. Squire -- Assays for LH, FSH, and prolactin / Michael J. Wheeler -- Adrenocorticotropic hormone and related peptides / Les A. Perry -- Measurement of glucocorticoids in biological fluids / Geoff Holder -- Urinary steroid profiling / Norman F. Taylor -- Measurement of aldosterone in blood / Marion L. Cawood -- Measurement of plasma renin activity / Marion L. Cawood -- Measurement of androgens / Michael J. Wheeler -- Measurement of gut hormones in plasma / Shahred Taheri, Mohammed Ghatei, and Steve Bloom -- Measurement of melatonin and 6-sulphatoxymelatonin / Benita Middleton.
  • Section 1. Viruses, microbes, and parasites. Microbial cells analysis by atomic force microscopy / David Alsteens ; Understanding parasite transmission through imaging approaches / Mirko Singer and Freddy Frischknecht ; Multiphoton microscopy applied for real-time intravital imaging of bacterial infections in vivo / Ferdinand X. Choong ... [et al.] ; Analysis of virus entry and cellular membrane dynamics by single particle tracking / Helge Ewers and Mario Schelhaas ; Imaging of live malaria blood stage parasites / Christof Grüring and Tobias Spielmann ; Escherichia coli K1 invasion of human brain microvascular endothelial cells / Lip Nam Loh and Theresa H. Ward -- Section 2. Disease states. Real-time imaging after cerebral ischemia : model systems for visualization of inflammation and neuronal repair / Pierre Cordeau and Jasna Kriz ; In vivo real-time visualization of leukocytes and intracellular hydrogen peroxide levels during a zebrafish acute inflammation assay / Luke Pase, Cameron J. Nowell, and Graham J. Lieschke ; Imaging protein oligomerization in neurodegeneration using bimolecular fluorescence complementation / Federico Herrera, Susana Gonçalves, and Tiago Fleming Outeiro ; 3D/4D functional imaging of tumor-associated proteolysis : impact of microenvironment / Kamiar Moin ... [et al.] -- Section 3. Other techniques. Live cell imaging in live animals with fluorescent proteins / Robert M. Hoffman ; Protein activation dynamics in cells and tumor micro arrays assessed by time resolved Förster resonance energy transfer / Véronique Calleja, Pierre Leboucher, Banafshe ́Larijani ; Imaging stem cell differentiation for cell-based tissue repair / Zhenghong Lee ... [et al.] ; Understanding the initiation of B cell signaling through live cell imaging / Angel M. Davey ... [et al.] ; A quantitative method for measuring phototoxicity of a live cell imaging microscope / Jean-Yves Tinevez ... [et al.] ; High content screening of defined chemical libraries using normal and glioma-derived neural stem cell lines / Davide Danovi ... [et al.] ; High-throughput screening in primary neurons / Punita Sharma ... [et al.] ; Live imaging fluorescent proteins in early mouse embryos / Panagiotis Xenopoulos, Sonja Nowotschin, and Anna-Katerina Hadjantonakis ; Methods for three-dimensional analysis of dendritic spine dynamics / Enni Bertling ... [et al.] ; Imaging cell competition in Drosophila imaginal discs / Shizue Ohsawa ... [et al.] ; Live cell imaging of the oviduct / Sabine Kölle -- Computational quantification of fluorescent leukocyte numbers in zebrafish embryos / Felix Ellett and Graham J. Lieschke -- Four-dimensional tracking of lymphocyte migration and interactions in lymph nodes by two-photon microscopy / Masahiro Kitano and Takaharu Okada.
  • A General Description of HSPs, The Molecular Structure of HSP70 and The HSP70 Cycle --The Functions of HSP70 in Normal Cells --HSP70 in Damaged Cells --Mechanisms of Activation and Inactivation of HSP70 Synthesis --HSP70 in the Immune Responses --HSP70 in Carcinogenesis --HSP70 in aging --The role of HSP70 in the protection of: (A) The brain in alzheimer's disease and (B) The heart in cardiac surgery.
  • In situ hybridization using riboprobes on free-floating brain sections / Neil C. Owens, F. Martin Hess, and Emilio Badoer -- An in situ hybridization technique to detect low-abundance slug mRNA in adherent cultured cells / Changsun Choi ... [et al.] -- Identification of transplanted human cells in animal tissues / Daniel Benten, Kang Cheng, and Sanjeev Gupta -- In situ hybridization to plant tissues and chromosomes / Andreas Houben, Sharon J. Orford, and Jeremy N. Timmis -- Histochemical localization of cell proliferation using in situ hybridization for histone mRNA / Tim D. Hewitson, Kristen J. Kelynack, and Ian A. Darby -- Histochemical localization of apoptosis with in situ labeling of fragmented DNA / Tim D. Hewitson, Teresa Bisucci, and Ian A. Darby --Nonradioactive in situ hybridization on frozen sections and whole mounts / Julia Asp, Alexandra Abramsson, and Christer Betsholtz -- In situ hybridization of whole mount embryos / Murray Hargrave, Josephine Bowles, and Peter Koopman -- In situ detection of Epstein-Barr virus and phenotype determination of EBV-infected cells / Gerald Niedobitek and Hermann Herbst -- PNA- situ hybridization method for detection of HIV-1 DNA in virus-infected cells and subsequent detection of cellular and viral proteins / Tomoko Hagiwara, Junko Hattori, and Tsuguhiro Kaneda -- Electron microscopy and in situ hybridization: expression of P2Y2 receptor mRNA in the cerebellum / Andrzej Loesch and Rainer Glass --The use of combined immunohistochemical labeling and in situ hybridization to colocalize mRNA and protein in tissue sections / Malcolm D. Smith, Michael Ahern, and Mark Coleman -- Semiquantitative in situ hybridization using radioactive probes to study gene expression in motoneuron populations / Paul D. Storer and Tracey DeLucia -- Quantitative in situ hybridization of tissue microarrays / Adrian M. Jubb ... [et al.].Treatment of tissue sections for in situ hybridization / Gregory H. Tesch, Hui Y. Lan, and David J. Nikolic-Paterson -- Preparation of template DNA and labeling techniques / Peter J. Roche -- In situ hybridization using cRNA probes: isotopic and nonisotopic detection methods / Ian A. Darby ... [et al.] -- Tyramide signal amplification for DNA and mRNA in situ hybridization / Ernst J.M. Speel, Anton H.N. Hopman, and Paul Komminoth -- Expression analysis of murine genes using in situ hybridization with radioactive and nonradioactively labeled RNA probes / Anne Chotteau-Lelièvre, Pascal Dollé, and Françoise Gofflot --
  • Energy systems for ATP regeneration in cell-free protein synthesis reactions / Kara A. Calhoun and James R. Swartz -- Continuous-exchange protein-synthesizing systems / Vladimir A. Shirokov ... [et al.] -- Cell-free production of integral membrane proteins on a preparative scale / Christian Klammt ... [et al.] -- SIMPLEX : a novel method for high-throughput construction and screening of protein libraries / Suang Rungpragayphan, Tsuneo Yamane, and Hideo Nakano -- Methods for high-throughput materialization of genetic information based on the wheat germ cell-free expression system / Tatsuya Sawasaki ... [et al.] -- Exogenous protein expression in Xenopus oocytes : basic procedures / Elena Bossi ... [et al.] -- In vitro translation to study HIV protease activity / Zene Matsuda ... [et al.] --The protein truncation test in mutation detection and molecular diagnosis / Oliver Hauss and Oliver Muller -- Creation of novel enantioselective lipases by SIMPLEX / Yuichi Koga, Tsuneo Yamane, and Hideo Nakano -- In vitro transcription and translation coupled with two-dimensional electrophoresis for bacterial proteome analysis / Nathalie Norais ... [et al.] -- In vitro screen of bioinformatically selected Bacillus anthracis vaccine candidates by coupled transcription, translation, and immunoprecipitation analysis / Orit Gat, Haim Grosfeld, and Avigdor Shafferman -- Functional expression of Type 1 rat GABA transporter in microinjected Xenopus laevis oocytes / Stefano Giovannardi ... [et al.] -- Production of protein for nuclear magnetic resonance study using the wheat germ cell-free system / Toshiyuki Kohno and Yaeta Endo.
  • Inositol phosphates and lipids 2009, Springer Protocols
    The role of inositol and the principles of labelling, extraction, and analysis of inositides in mammalian cells / Christopher J. Barker and Per-Olof Berggren -- HPLC separation of inositol polyphosphates / Christopher J. Barker, Christopher Illies, and Per-Olof Berggren -- Molecular manipulation and analysis of inositol phosphate and pyrophosphate levels in mammalian cells / James C. Otto and John D. York -- A femtomole-sensitivity mass assay for inositol hexakisphosphate / Andrew J. Letcher, Michael J. Schell, and Robin F. Irvine -- Synthesis of InsP₇ by the inositol hexakisphosphate kinase 1 (IP6K1) / Cristina Azevedo ... [et al.] -- Protein pyrophosphorylation by diphosphoinositol pentakisphosphate (InsP₇) / J. Kent Werner Jr., Traci Speed, and Rashna Bhandari -- Synthesis and nonradioactive micro-analysis of diphosphoinositol phosphates by HPLC with postcolumn complexometry / Hongying Lin, Karsten Lindner, and Georg W. Mayr -- Diphosphosinositol polyphosphates and energy metabolism : assay for ATP/ADP ratio / Andreas Nagel ... [et al.] -- Isolation of inositol 1,4,5-triphosphate receptor-associating proteins and selective knockdown using RNA interference / Akihiro Mizutani ... [et al.] -- Phosphoinositide-specific phospholipase C [beta]1 signal transduction in the nucleus / Roberta Fiume ... [et al.] -- Methods to assess changes in the pattern of nuclear phosphoinositides / Nullin Divecha -- Measurement of phosphoinositide 3-kinase products in cultured mammalian cells by HPLC / Frank T. Cooke -- Phosphoinositide analysis by liquid chromatography-mass spectrometry / Trevor R. Pettitt -- Imaging phosphoinositide dynamics in living cells / Anne Wuttke, Olof Idevall-Hagren, and Anders Tengholm.
  • Terpene indole alkaloid biosynthesis /Sarah E. O'Connor, Elizabeth McCoy --Pathways to diverse ergot alkaloid profiles in fungi /Daniel G. Panaccione, Christopher L. Schardl, Christine M. Coyle --Compartmentalization of plant secondary metabolism /Nailish Samanani, Peter J. Facchini --Comparative genomics of the shikimate pathways in Arabidopsis, Populus trichocarpa and Oryza sativa : shikimate pathway gene family structure and identification of candidates for missing links in pehnylalanine biosynthesis /Björn Hamberger ... [et al.] --Tomato glandular trichomes as a model system for exploring evolution of specialized metabolism in a single cell /Eyal Fridman ... [et al.] --Anacardic acid biosynthesis and bioactivity /David J. Schultz, Nalinie S. Wickramasinghe, Carolyn M. Klinge --Molecular and biochemical investigations of sorgoleone biosynthesis /Daniel Cook ... [et al.] --Biosynthesis of terpenophenolic metabolites in hop and cannabis /Jonathan E. Page, Jana Nagel --Engineering pathway enzymes to understand the function and evolution of sterol structure and activity /Pruthvi Jayasimha ... [et al.] --Methylation and demethylation of plant signaling molecules /Yue Yang ... [et al.] --Recent advances in auxin biosynthesis and conjugation /Amber Kei Bowers, Yunde Zhao --Auxin biology and biosynthesis /Jessica Calio, Yuen Yee Tam, Jennifer Normanly --Translational opportunities in plant biochemistry /Cecilia A. McIntosh.
  • Integrin structure and functional relation with ion channels / Annarosa Arcangeli and Andrea Becchetti -- Introduction to ion channels / Chiara Di Resta and Andrea Becchetti -- Biochemical methods to study the interactions between integrins and ion channels / Olivia Crociani -- Optical methods in the study of protein : protein interactions / Alessio Masi ... [et al.] -- Integrins and signal transduction / -- Sara Cabodi ... [et al.] -- Physical and functional interaction between integrins and herg1 channels in cancer cells / Serena Pillozzi and Annarosa Arcangeli -- Coordinated regulation of vascular Ca2+ and K+ channels by integrin signaling / Peichun Gui ... [et al.] -- Adhesion : dependent modulation of macrophage K+ channels / Margaret Colden-Stanfield -- Integrin receptors and ligand : gated channels / Raffaella Morini and Andrea Becchetti -- Integrins and ion channels in cell migration : implications for neuronal development, wound healing and metastatic spread / Andrea Becchetti and Annarosa Arcangeli.
  • Chapter 1. Introduction to enzymes, receptors and the action of small molecule drugs -- chapter 2. Protein structure and function -- chapter 3. The small molecule drug discovery process : from target selection to candidate selection -- chapter 4. Protein therapeutics (introduction to biopharmaceuticals) -- chapter 5. Similarities and differences in the discovery and use of biopharmaceuticals and small-molecule chemotherapeutics -- chapter 6. Therapies for type 2 diabetes : modulating the incretin pathway using small molecule peptidase inhibitors or peptide mimetics -- chapter 7. The structure and business of biopharmaceutical companies including the management of risks and resources -- chapter 8. Discovery and development of the anticancer agent gefitinib, an inhibitor of the epidermal growth factor receptor tyrosine kinase -- chapter 9. Targeting HER2 by monoclonal antibodies for cancer therapy -- chapter 10. Recombinant human erythropoietin and its analogues -- chapter 11. Lysosomal storage disorders : current treatments and future directions -- chapter 12. Hormone replacement therapy -- chapter 13. Design of the anti-HIV protease inhibitor darunavir -- chapter 14. The case of anti-TNF agents -- chapter 15. Discovery of the cholesterol absorption inhibitor, ezetimibe.
  • An Introduction to Biological Membranes: From Bilayers to Rafts covers many aspects of membrane structure/function that bridges membrane biophysics and cell biology. Offering cohesive, foundational information, this publication is valuable for advanced undergraduate students, graduate students and membranologists who seek a broad overview of membrane science. Brings together different facets of membrane research in a universally understandable mannerEmphasis on the historical development of the field. Topics include membrane sugars, membrane models, membrane isolation methods, and membrane transport.
  • The aim of this book volume is to explain the importance of Markov state models to molecular simulation, how they work, and how they can be applied to a range of problems. The Markov state model (MSM) approach aims to address two key challenges of molecular simulation: 1) How to reach long timescales using short simulations of detailed molecular models 2) How to systematically gain insight from the resulting sea of data MSMs do this by providing a compact representation of the vast conformational space available to biomolecules by decomposing it into states sets of rapidly interconverting conformations and the rates of transitioning between states.This kinetic definition allows one to easily vary the temporal and spatial resolution of an MSM from high-resolution models capable of quantitative agreement with (or prediction of) experiment to low-resolution models that facilitate understanding. Additionally, MSMs facilitate the calculation of quantities that are difficult to obtain from more direct MD analyses, such as the ensemble of transition pathways. This book introduces the mathematical foundations of Markov models, how they can be used to analyze simulations and drive efficient simulations, and some of the insights these models have yielded in a variety of applications of molecular simulation.
  • Ion channels 2006, Springer Protocols
    A simple in-vivo method for assessing changes of membrane bound ion channel density in xenopus oocytes / Mouhamed S. Awayda ... [et al.] -- Preparation of cortical brain slices for electrophysiological recording / Costa M. Colbert -- Juxtacellular labeling and chemical phenotyping of extracellulary recorded neurons in vivo / Glenn M. Toney and Lynette C. Daws -- Carbon fiber amperometry in the study of ion channels and secretion / Duk-Su Koh -- Genetic screening for functionality of bacterial potassium channel mutants using K+ update-deficient escherichia coli / Lyubov V. Parfenova and Brad S. Rothberg -- KCNQ1 K channel-mediated cardiac channelopathies / Gildas Loussouarn, Isabelle Baro, and Denis Escade -- Tissue-specific transgenic and knockout mice / Andrée Porret ... [et al.].Functional reconstitution of the human epithelial Na+ channel in a mammalian expression system / Alexander Staruschenko ... [et al.] -- Overexpression of proteins in neurons using replication-deficient virus / Richard M. Ahlquist and Jane M. Sullivan -- Exogenous expression of proteins in neurons using the biolistic particle delivery system / Nikita Gamper and Mark S. Shapiro --Tertiary and quaternary structure formation of voltage-gated potassium channels / John M. Robinson, Andrey Kosolapov, and Carol Deutsch -- Biophysical approach to determine the subunit stoichiometry of the epithelial sodium channel using the xenopus laevis oocyte expression system / Farhad Kosari, Shaou Sheng, and Thomas R. Kleyman -- Spectroscopy-based quantitative fluorescence resonance energy transfer analysis / Jie Zheng -- Probing the effects of phosphoinositides on ion channels / Chou-Long Huang -- Epithelial sodium channel in planar lipid bilayers / Bakhrom K. Berdiev and Dale J. Benos --
  • Kainate receptors 2011, Springer
    "This volume critically examines the functional actions of the kainate type glutamate receptors (KARs). Following on from the larger body of work on the NMDA and AMPA-type ionotropic glutamate receptors (GluRs), studies with KARs have consistently thrown up exceptions to general rules about synaptic modulation. Contributors herein provide an insight to the idiosyncracies that now almost typify the KAR field. The fascinating insights provided in this volume serve to encourage searching mechanistic questions"--Provided by publisher.
  • Section I. Cell protocols : basic microbiological techniques. Pouring agar plates and streaking or spreading to isolate individual colonies / Elizabeth Eyler ; Storage of bacteria and yeast / Cheryl M. Koh -- Section II. Cell protocols : cellular fractionation. Cellular fractionation : mammalian cells / Joerg von Hagen and Uwe Michelsen ; Cellular fractionation : yeast cells / Joerg von Hagen and Uwe Michelsen -- Section III. Cell protocols : Knock-outs and gene replacements. Yeast-gene replacement using PCR products / Megan Bergkessel, Christine Guthrie, and John Abelson ; Measuring RNAi knockdown using qPCR / Stuart Milstein, Michael Nguyen, Rachel Meyers, and Antonin de Fougerolles ; Recombineering : using drug cassettes to knock out genes in vivo / James A. Sawitzke, Lynn C. Thomason, Mikhail Bubunenko, Xintian Li, Nina Costantino, and Donald L. Court ; Gene knockouts, in vivo site-directed mutagenesis and other modifications using the delitto perfetto system in Saccharomyces cerevisiae / Samantha Stuckey and Francesca Storici ; Gene targeting and site-specific recombination in mouse ES cells / Konstantinos Anastassiadis, Frank Schnütgen, Harald von Melchner, and A. Francis Stewart ; Recombineering : highly efficient in vivo genetic engineering using single-strand oligos / James A. Sawitzke, Lynn C. Thomason, Mikhail Bubunenko, Xintian Li, Nina Costantino, and Donald L. Court -- Section IV. Cell protocols : microbiological media. Growth media for E. coli / Juliane C. Lessard ; Saccharomyces cerevisiae growth media / Jessica S. Dymond --Section V. Cell protocols : preparation of slides for microscopy. Immunohistochemistry on freely floating fixed tissue sections / Julia Bachman ; Preparation of slides for microscopy from frozen tissue sections / Julia Bachman ; Preparation of formalin-fixed paraffin-embedded tissue for immunohistochemistry / Kirstie Canene-Adams ; Preparation of cells for microscopy using cytospin / Cheryl M. Koh ; Preparation of cells for microscopy using chamber slides and coverslips / Cheryl M. Koh ; Preparation of cells for microscopy using 'cell blocks' / Cheryl M. Koh -- Section VI. Lipid and carbohydrate protocols. Enzymatic deglycosylation of glycoproteins / Min-Sung Kim and Dan Leahy -- Section VII. Lipid and carbohydrate protocol : making vesicles and micelles. Preparation of fatty acid or phospholipid vesicles by thin-film rehydration / Ting F. Zhu, Itay Budin, and Jack W. Szostak ; Vesicle extrusion through polycarbonate track-etched membranes using a hand-held mini-extruder / Ting F. Zhu, Itay Budin, and Jack W. Szostak ; Preparation of fatty acid micelles / Ting F. Zhu, Itay Budin, and Jack W. Szostak -- Section VIII. Other protocols. Reverse-phase HPLC analysis and purification of small molecules / Kirstie Canene-Adams ; Thin layer chromatography / Marina Santiago and Scott Strobel ; ATP and GTP hydrolysis assays (TLC) / Vaishnavi Rajagopal and Jon R. Lorsch.
  • Explanatory chapter: PCR primer design / Rubén Álvarez-Fernández -- How plasmid preparation kits work / Laura Koontz -- Introducing exogenous DNA into cells / Laura Koontz -- Agarose gel electrophoresis / Laura Koontz -- Analysis of DNA by southern blotting / Gary Glenn and Lefkothea-Vasiliki Andreou -- Purification of DNA oligos by denaturing polyacrylamide gel electrophoresis (PAGE) / Sara Lopez-Gomollon and Francisco Esteban Nicolas -- Molecular cloning / Juliane C. Lessard -- Rapid creation of stable mammalian cell lines for regulated expression of proteins using the Gateway® recombination cloning technology and Flp-In T-REx® lines / Jessica Spitzer, Markus Landthaler, and Thomas Tuschl -- Restrictionless cloning / Mikkel A. Algire -- Isolation of plasmid DNA from bacteria / Lefkothea-Vasiliki Andreou -- Preparation of genomic DNA from bacteria / Lefkothea-Vasiliki Andreou -- Preparation of genomic DNA from Saccharomyces cerevisiae / Jessica S. Dymond -- Isolation of genomic DNA from mammalian cells / Cheryl M. Koh -- Sanger dideoxy sequencing of DNA / Sarah E. Walker and Jon Lorsch -- Preparation of fragment libraries for next-generation sequencing on the applied biosystems SOLiD platform / Srinivasan Yegnasubramanian -- Next generation sequencing / Srinivasan Yegnasubramanian -- Generating mammalian stable cell lines by electroporation / Patti A. Longo, Jennifer M. Kavran, Min-Sung Kim, and Daniel J. Leahy -- Transient mammalian cell transfection with polyethylenimine (PEI) / Patti A. Longo, Jennifer M. Kavran, Min-Sung Kim, and Daniel J. Leahy -- Site-directed mutagenesis / Julia Bachman -- PCR-based random mutagenesis / Jessica S. Dymond -- Megaprimer method for mutagenesis of DNA / Craig W. Vander Kooi -- Troubleshooting PCR / Kirstie Canene-Adams -- Quantitative PCR / Jessica S. Dymond -- General PCR / Kirstie Canene-Adams -- Colony PCR / Megan Bergkessel and Christine Guthrie -- Chemical transformation of yeast / Megan Bergkessel and Christine Guthrie -- Transformation of E. coli via electroporation / Juliane C. Lessard -- Transformation of chemically competent E. coli / Rachel Green and Elizabeth J. Rogers.
  • Computational prediction of RNA secondary structure -- Reverse-transcription PCR (RT-PCR) -- Northern blotting -- Explanatory chapter: nuclease protection assays -- In vitro transcription from plasmid or PCR-amplified DNA -- Measurement of in vivo synthesis rates -- Method for measuring mRNA decay rate in saccharomyces cerevisiae -- Analysis of polysomes from bacteria -- Polysome profile analysis - yeast -- Polysome analysis of mammalian cells -- Polysome analysis for determining mRNA and ribosome association in saccharomyces cerevisiae -- Oligo(dT)-primed RT-PCR isolation of polyadenylated RNA degradation intermediates -- Circularized RT-PCR (cRT-PCR): analysis of the 5' ends, 3' ends, and poly(A) tails of RNA -- RNA radiolabeling -- Fluorescently labeling synthetic RNAs -- Analysis of RNA by analytical polyacrylamide gel -- RNA purification by preparative polyacrylamide gel -- Explanatory chapter: nucleic acid concentration determination -- RNA purification-precipitation methods -- Reverse transcriptase dideoxy sequencing of RNA -- RNA structure experimental analysis-chemical modification -- Structural analysis of RNA backbone using in-line probing.
  • Laboratory Protocols in Fungal Biology presents the latest techniques in fungal biology. This book analyzes information derived through real experiments, and focuses on cutting edge techniques in the field. The book comprises 57 chapters contributed from internationally recognised scientists and researchers. Experts in the field have provided up-to-date protocols covering a range of frequently used methods in fungal biology. Almost all important methods available in the area of fungal biology viz. taxonomic keys in fungi; histopathological and microscopy techniques; proteomics methods; genomics methods; industrial applications and related techniques; and bioinformatics tools in fungi are covered and complied in one book. Chapters include introductions to their respective topics, list of the necessary materials and reagents, step-by-step, readily reproducible laboratory protocols, and notes on troubleshooting. Each chapter is self-contained and written in a style that enables the reader to progress from elementary concepts to advanced research techniques. Laboratory Protocols in Fungal Biology is a valuable tool for both beginner research workers and experienced professionals.
  • Laser capture microdissection 2004, Springer Protocols
    An introduction to laser-based tissue microdissection techniques / Stephanie Curran and Graeme I. Murray -- Methacarn fixation for genomic DNA analysis in microdissected cells / Makoto Shibutani and Chikako Uneyama -- Multiplex quantitative real-time PCR of laser microdissected tissue / Patrick H. Rooney -- Comparative genomic hybridization using DNA from laser capture microdissected tissue / Grace Callagy, Lucy Jackson, and Carlos Caldas -- Detection of Ki-ras and p53 mutations by laser capture microdissection/PCR/SSCP / Deborah Dillon ... [et al.] -- Whole-genome allelotyping using laser microdissected tissue / Colleen M. Feltmate and Samuel C. Mok -- Microdissection for detecting genetic aberrations in early and advanced human urinary bladder cancer / Arndt Hartmann ... [et al.] -- Laser microdissection for microsatellite analysis in colon and breast cancer / Peter J. Wild ... [et al.] -- Assessment of RET/PTC oncogene activation in thyroid nodules utilizing laser microdissection followed by nested RT-PCR / Giovanni Tallini and Guilherme Brandao -- Combined laser-assisted microdissection and short tandem repeat analysis for detection of in situ microchimerism after solid organ transplantation / Ulrich Lehmann, Anne Versmold, and Hans Kreipe --Genetic analysis of HIV by in situ PCR-directed laser capture microscopy of infected cells / Daniele Marras -- Use of laser capture microdissection together with in situ hybridization and real-time PCR to study the distribution of latent herpes simplex virus genomes in mouse trigeminal ganglion / Xiao-Ping Chen, Marina Mata, and David J. Fink -- Laser capture microdissection and PCR for analysis of human papilloma virus infection / Kheng Chew ... [et al.] -- Laser capture microdissection of hepatic stages of the human parasite plasmodium falciparum for molecular analysis / Jean-Philippe Semblat ... [et al.].Laser-assisted microdissection of membrane-mounted tissue sections / Lise Mette Gjerdrum and Stephen Hamilton-Dutoit -- Laser-assisted microdissection of membrane-mounted sections following immunohistochemistry and in situ hybridization / Lise Mette Gjerdrum and Stephen Hamilton-Dutoit -- Laser-assisted cell microdissection using the PALM system / Patrick Micke ... [et al.] -- Laser microdissection and RNA analysis / Ludger Fink and Rainer Maria Bohle -- Gene expression profiling of primary tumor cell populations using laser capture microdissection, RNA transcript amplification, and GeneChip® microarrays / Veronica I. Luzzi, Victoria Holtschlag, and Mark A. Watson -- Quantification of gene expression in mouse and human renal proximal tubules / Jun-ya Kaimori, Masaru Takenaka, and Kousaku Okubo -- Laser capture microdissection for analysis of macrophage gene expression from atherosclerotic lesions / Eugene Trogan and Edward A. Fisher -- Analysis of pituitary cells by laser capture microdissection / Ricardo V. Lloyd, ... [et al.] -- Laser capture microdissection and colorectal cancer proteomics / Laura C. Lawrie and Stephanie Curran -- Proteomic analysis of human bladder tissue using SELDI® approach following microdissection techniques / Rene C. Krieg ... [et al.] --
  • Lipid rafts 2007, Springer Protocols
    Overview of membrane rafts / Thomas J. McIntosh -- Analysis of raft affinity of membrane proteins by detergent-insolubility / Deborah A. Brown -- Nondetergent isolation of rafts / Mehul B. Shah and Pravin B. Sehgal -- Detecting ordered domain formation (lipid rafts) in model membranes using tempo / Omar Bakht and Erwin London -- Using monomolecular films to characterize lipid lateral interactions / Rhoderick E. Brown and Howard L. Brockman -- Electro-formation and fluorescence microscopy of giant vesicles with coexisting liquid phases / Sarah L. Veatch -- Fluorescence correlation spectroscopy / Kristen Bacia and Petra Schwille -- Multiphoton laser-scanning microscopy and spatial analysis of dehydroergosterol distributions on plasma membrane of living cells / Avery L. McIntosh ... [et al.] -- NMR detection of lipid domains / Ivan V. Polozov and Klaus Gawrisch -- Lateral diffusion coefficients of raft lipids from pulsed field gradient NMR / Greger Orädd and Göran Lindblom -- Saturation-recovery electron paramagnetic resonance discrimination by oxygen transport (DOT) method for characterizing membrane domains / Witold K. Subczynski ... [et al.] -- Plasmon-waveguide resonance spectoscopy studies of lateral segregation in solid-supported proteolipid bilayers / Zdzislaw Salamon, Savitha Devanathan, and Gordon Tollin -- Fluorescence recovery after photobleaching studies of lipid rafts / Anne K. Kenworthy -- Single-molecule tracking / Marija Vrljic, Stefanie Y. Nishimura, and W.E. Moerner -- X-ray diffraction to determine the thickness of raft and nonraft bilayers / Thomas J. McIntosh -- Small-angle neutron scattering to detect rafts and lipid domains / Jeremy Pencer ... [et al.] -- Exploring membrane domains using native membrane sheets and transmission electron microscopy / Bridget S. Wilson ... [et al.] -- Atomic force microscopy of lipid domains in supported model membranes / Alan R. Burns --Atomistic and coarse-grained computer simulations of raft-like lipid mixtures / Sagar A. Pandit and H. Larry Scott -- A microscopic model calculation of the phase diagram of ternary mixtures of cholesterol and saturated and unsaturated phospholipids / R. Elliott, I. Szleifer, and M. Schick.
  • Liposome methods and protocols 2002, Springer Protocols
  • Luminescence biotechnology 2002, CRCnetBASE
  • Introduction -- Molecular machines -- The processes of living -- Molecules in cells: Escherichia coli -- A human cell: The advantages of compartments -- The human body: The advantages of specialization -- Life and death -- Viruses -- You and your molecules.
  • Macromolecular crystallography protocols v. 1-2, 2006., Springer Protocols
    v. 2, 2006 Springer Protocols
    v. 1. A Generic Method for the Production of Recombinant Proteins in Escherichia coli Using a Dual Hexahistidine-Maltose-Binding Protein Affinity Tag / Joseph E. Tropea ... [et al.] -- Cloning, Production, and Purification of Proteins for a Medium-Scale Structural Genomics Project / Sophie Quevillon-Cheruel ... [et al.] -- Baculoviral Expression of an Integral Membrane Protein for Structural Studies / Dean R. Madden and Markus Safferling -- Protein Engineering / Sonia, Longhi, Francois Ferron, and Marie-Pierre Egloff -- Production of Selenomethionyl Proteins in Prokaryotic and Eukaryotic Expression Systems / Sylvie Doublié -- How to Use Dynamic Light Scattering to Improve the Likelihood of Growing Macromolecular Crystals / Gloria E. O. Borgstahl -- Screening and Optimization Methods for Nonautomated Crystallization Laboratories / Terese Bergfors -- Improving Marginal Crystals / Charles W. Carter, Jr. and Madeleine Riès-Kautt -- Optimization Techniques for Automation and High Throughput / Naomi E. Chayen -- Three-Dimensional Crystallization of Membrane Proteins / James Féthière -- Crystallization of Protein-DNA Complexes / Thomas Hollis -- Preparation and Crystallization of RNA / Barbara L. Golden -- Crystallization of RNA-Protein Complexes / Eiji Obayashi ... [et al.] -- Index.v. 2. Cryocrystallography of Macromolecules: Practice and Optimization / Elspeth Garman and Robin L. Owen -- Determination of Reaction Intermediate Structures in Heme Proteins / Kelvin Chu -- Annealing Macromolecular Crystals / B. Lief Hanson and Gerard J. Bunick -- First Analysis of Macromolecular Crystals: Biochemistry and X-Ray Diffraction / David Jeruzalmi -- X-Ray Data Collection from Macromolecular Crystals / Elspeth Garman and Robert M. Sweet -- Characterizing a Crystal from an Initial Native Dataset / Michael R. Sawaya -- Molecular Replacement / Eric A. Toth -- Phase Determination using Halide Ions / Miroslawa Dauter and Zbigniew Dauter -- The Same But Different: Isomorphous Methods for Phasing and High-Throughput Ligand Screening / Mark A. Rould -- Substructure Determination in Multiwavelength Anomalous Diffraction, Single Anomalous Diffraction, and Single Isomorphous Replacement with Anomalous Scattering Data Using Shake-and-Bake / G. David Smith, Christopher T. Lemke, and P. Lynne Howell -- Substructure Determination in Isomorphous Replacement and Anomalous Diffraction Experiments / Ralf W. Grosse-Kunstleve and Thomas R. Schneider -- Automated Structure Solution with autoSHARP / Clemens Vonrhein, Eric Blanc, Pietro Roversi, and Gérard Bricogne -- Introduction to Macromolecular Refinement / Dale E. Tronrud -- Quality Control and Validation / Gerard J. Kleywegt -- Crystallographic Software: A Sustainable Resource for the Community / Stephen J. Everse and Sylvie Doublié -- Index.v. 1. Preparation and crystallization of macromolecules -- v. 2. Structure determination.
  • MAP kinase signaling protocols 2004, Springer Protocols
  • The volume dwells on the major issues of mechanical stress influencing the ion channels and intracellular signaling pathways. This book is a unique collection of reviews outlining current knowledge and future developments in this rapidly growing field. In our opinion the book presents not only the latest achievements in the field but also brings the problem closer to the experts in related medical and biological sciences as well as practicing doctors. Knowledge of the mechanisms which underlie these processes is necessary for understanding of the normal functioning of different living organs and tissues and allows to predict changes, which arise due to alterations of their environment, and possibly will allow to develop new methods of artificial intervention. We also hope that presenting the problem will attract more attention to it both from researchers and practitioners and will assist to efficiently introduce it into the practical medicine.
  • Membrane protein protocols 2003, Springer Protocols
  • Membrane proteomics 2009, Springer Protocols
    Online tools for predicting integral membrane proteins / H. Bigelow and B. Rost -- In silico identification of novel G protein coupled receptors / M.N. Davies and D.R. Flower -- Transcriptome-based identification of candidate membrane proteins / E.J. Evans ... [et al.] -- Separation of thylakoid membrane proteins by sucrose gradient ultracentrifugation or blue native-SDS-PAGE two-dimensional electrophoresis / G.M. D'Amici, C.G. Huber and L. Zolla -- Extraction of yeast mitochondrial membrane proteins by solubilization and detergent/polymer aqueous two-phase partitioning / H. Everberg, N. Gustavsson and F. Tjerneld -- 16-BAC/SDS-PAGE analysis of membrane proteins of yeast mitochondria purified by free flow electrophoresis / R.J. Braun ... [et al.] -- Sequential detergent extraction prior to mass spectrometry analysis / F.M. McCarthy, A.M. Cooksey and S.C. Burgess -- Enrichment of brain plasma membranes by affinity two-phase partitioning / J. Schindler and H.G. Nothwang -- Protocol to enrich and analyze plasma membrane proteins / R.J. Wisniewski -- Proteomic analysis of the lymphocyte plasma membrane using cell surface biotinylation and solution-phase isoelectric focusing / M.J. Peirce, A.P. Cope and R. Wait -- Identification of target membrane proteins as detected by phage antibodies / C.A. Geuijen, A.Q. Bakker and J. de Kruif -- Membrane protease degradomics: proteomic identification and quantification of cell surface protease substrates / G.S. Butler ... [et al.] -- Purification of basolateral integral membrane proteins by cationic colloidal silica-based apical membrane subtraction / R.J. Goode and R.J. Simpson -- Moving closer to the lipid raft proteome using quantitative proteomics / L.J. Foster -- Use of sequential chemical extractions to purify nuclear membrane proteins for proteomics identification / N. Korfali ... [et al.] -- Isolation of extracellular membranous vesicles for proteomic analysis / R.A. Mathias ... [et al.] -- Enrichment of human platelet membranes for proteomic analysis / D.W. Greening ... [et al.] -- Detergents and chaotropes for protein solubilization before two-dimensional electrophoresis / T. Rabilloud -- Two-dimensional separation of membrane proteins by 16-BAC-SDS-PAGE / H.G. Nothwang and J. Schindler -- MudPIT analysis: application to human heart tissue / K.G. Kline and C.C. Wu -- Liquid chromatography MALDI MS/MS for membrane proteome analysis / N. Wang, J.B. Young and L. Li -- Cysteinyl-tagging of integral membrane proteins for proteomic analysis using liquid chromatography-tandem mass spectrometry / S.K. Mitra and M.B. Goshe -- Quantitative proteomics analysis of pancreatic zymogen granule membrane proteins / X. Chen and P.C. Andrews.
  • Membrane transporters 2003, Springer Protocols
  • Clinical, epidemiologic, and laboratory aspects of methicillin-resistant Staphylococcus aureus (MRSA) infections / Elizabeth Palavecino -- MRSA case studies / Kurt D. Reed, Mary E. Stemper, and Sanjay K. Shukla -- MIC analysis and susceptibility testing of MRSA / German Bou -- ITS-PCR identification of MRSA / Shin-ichi Fujita -- Pulsed-field gel electrophoresis of methicillin-resistant Staphylococcus aureus / Kurt D. Reed, Mary E. Stemper, and Sanjay K. Shukla -- Multilocus sequence typing (MLST) of Staphylococcus aureus / Nicholas A. Saunders and Anne Holmes -- Staphylococcal cassette chromosome mec (SCCmec) analysis of MRSA / Teruyo Ito, Kyoko Kuwahara, and Keiichi Hiramatsu -- Targeted gene disruption for the analysis of virulence of Staphylococcus aureus / J. Ross Fitzgerald --Molecular analysis of staphylococcal superantigens / Patrick M. Schlievert and Laura C. Case -- Investigation of biofilm formation in clinical isolates of Staphylococcus aureus / James E. Cassat, Chia Y. Lee, and Mark S. Smeltzer -- Comparative analysis of staphylococcal adhesion and internalization by epithelial cells / Xudong Liang and Yinduo Ji -- Comparative analysis of MRSA / Fumihiko Takeuchi, Tadashi Baba, and Keiichi Hiramatsu -- Genomic analysis of gene expression of Staphylococcus aureus / Chuanxin Yu ... [et al.] -- Proteomic approach to investigate methicillin-resistant Staphylococcus aureus / Patrice Francois ... [et al.] -- Environmental surveillance for methicillin-resistant Staphylococcus aureus / J. Scott Weese -- The control and prevention of MRSA infections / Liangsu Wang and John F. Barrett -- Treatment of infections due to resistant Staphylococcus aureus / Gregory M. Anstead, Gabriel Quinones-Nazario, and James S. Lewis II.
  • Methods in membrane lipids 2007, Springer Protocols
  • Methods of microarray data analysis v. 4-5, 2005-07., Springer
    v. 5 (2007) Springer
  • MICAD NCBI Bookshelf
    This searchable database is a collection of in vivo molecular imaging agents developed for positron emission tomography (PET), single photon emission computed tomography (SPECT), magnetic resonance imaging (MRI), ultrasound (US), computed tomography (CT), and optical imaging. MICAD, a key component of the "Molecular Libraries and Imaging" program of the NIH Roadmap, is being developed by NCBI, the National Center for Biotechnology Information".
  • DNA microarray technology. Introduction / J.R. Pollack -- Comparative genomic hybridization on BAC arrays / B.P. Coe ... [et al.] -- Comparative genomic hybridization on spotted oligonucleotide microarrays / Y.H. Kim and J.R. Pollack -- Comparative genomic hybridization by representational oligonucleotide microarray analysis / R. Lucito and J. Byrnes -- Application of oligonucleotides arrays for coincident comparative genomic hybridization, ploidy status and loss of heterozygosity studies in human cancers / J.K. Cowell and K.C. Lo -- Molecular inversion probe assay for allelic quantitation / H. Ji and K. Welch -- A whole-genome amplification protocol for a wide variety of DNAs, including those from formalin-fixed and paraffin-embedded tissue / P.L. Paris -- Algorithms for calling gains and losses in array CGH data / P. Wang -- Methylation analysis by microarray / D.E. Deatherage ... [et al.] -- Methylation analysis by DNA immunoprecipitation (MeDIP) / E.A. Vucic ... [et al.] -- Combining chromatin immunoprecipitation and oligonucleotide tiling arrays (ChIP-Chip) for functional genomic studies / J. Eeckhoute, M. Lupien and M. Brown -- ChIP-Chip: algorithms for calling binding sites / X.S. Liu and C.A. Meyer -- Mapping regulatory elements by DNaseI hypersensitivity chip (DNase-Chip) / Y. Shibata and G.E. Crawford -- Microarray analysis of DNA replication timing / N. Karnani, C.M. Taylor and A. Dutta -- Integration of diverse microarray data types / K. Salari and J.R. Pollack.
  • Microarray technology has made strong progress over the past decade, and there have also been significant changes in application areas, from nucleic acids to proteomics and from research to clinical applications. This book provides a comprehensive overview of microarrays in diagnostics and biomarker development, covering DNA, peptide, protein and tissue arrays. The focus is on entities that are in actual clinical use, or quite close, and on recent developments, such as peptide and aptamer arrays. A further topic is the miniaturisation towards nanoarrays, which is expected to have great potential in clinical applications. Relevant issues of bioinformatics and statistical analysis of array data are discussed in detail, as well as the barriers to the commercialisation of array-based tests and the vexing IP issues involved. Thus, the book should be very useful tor active array users as well as to newcomers seeking to make the best choice between different technologies.
  • Bacterial growth -- The outer membrane of gram-negative bacteria and the cytoplasmic membrane -- Peptidoglycan synthesis and cell division -- Cellular permeability -- Allosteric enzymes -- Glycolysis, gluconeogenesis and glycogen synthesis -- The pentose phosphate and Entner-Doudoroff pathways -- The tricarboxylic acid cycle and the glyoxylate bypass -- ATP-generating processes : respiration and fermentation -- Biosynthesis of lipids -- Iron-sulfur proteins -- The archaea -- Methanogens and methylotrophs -- Enzyme induction in catabolic systems -- Transcription : RNA polymerase -- Negative regulation -- Enzyme repression in anabolic pathways -- Positive regulation -- The ribosomes -- The genetic code, the transfer RNAs and the aminoacyl-tRNA-synthetases -- Attenuation -- Riboswitches -- The biological fixation of nitrogen -- How biosynthetic pathways have been established -- The aspartic acid family of amino acids : biosynthesis -- Regulation of the biosynthesis of the amino acids of the aspartic acid family in Enterobacteriaceae -- Other patterns of regulation of the synthesis of amino acids of the aspartate family -- Biosynthesis of the amino acids of the glutamic acid family and its regulation -- Biosynthesis of amino acids derived from phosphoglyceric acid and pyruvic acid -- Selenocysteine and selenoproteins -- Biosynthesis of aromatic amino acids and its regulation -- The biosynthesis of histidine and its regulation -- The biosynthesis of nucleotides -- The biosynthesis of deoxyribonucleotides -- Biosynthesis of some water-soluble vitamins and of their coenzyme forms -- Biosynthesis of carotene, vitamin A, sterols, ubiquinones and menaquinones -- Biosynthesis of the tetrapyrrole ring system -- Biosynthesis of cobalamins including vitamin B12 -- Interactions between proteins and DNA -- Evolution of biosynthetic pathways.
  • MicroRNA protocols 2006, Springer Protocols
  • Mitochondrial DNA 2002, Springer Protocols
  • Part 1.Current Molecular Laboratory Methods --Specimen Collection, Handling, and Processing /Lindsy Hengesbach and John A. Gerlach --DNA/RNA Isolation and Quantitation /Jing Wang --Test Validation /Cindy McCloskey and S. Terence Dunn --In Vitro Amplification Methods in Molecular Diagnostics /C. Alexander Valencia and Bradford Coffee --Whole Genome Sequencing in the Clinical Laboratory /Tina Hambuch, Brad Sickler, Arnold Liao, Suneer Jain and Philip D. Cotter --Estimation of Exon Dosage Using Real-Time Quantitative Polymerase Chain Reaction /Applications to Factor VIII Gene in Hemophilia A and Endoglin/ACVRL1 Genes in Hereditary Hemorrhagic Telangiectasia /Juliana Purrazzella and Arupa Ganguly --Reporting Clinical Molecular Genetic Laboratory Results /Victor Wei Zhang and Lora J. H. Bean --Part 2.Clinical Molecular Infectious Disease Testing --HIV-1 Genotyping and Virtual Phenotyping /Fangling Xu and Jianli Dong --COBAS® AmpliPrep/COBAS® TaqMan® HIV-1 Test, Version 2.0 /Tavat A. Buraruk and Charles E. Stager --Hepatitis C Virus (HCV) Genotype Assay (LiPA) /Charles E. Stager and Tavat A. Buraruk --COBAS® AmpliPrep/COBAS® TaqMan® HCV Test /Charles E. Stager and Tavat A. Buraruk --Epstein-Barr Virus and Cytomegalovirus Viral Load Monitoring by Quantitative Real-Time Polymerase Chain Reaction /Su S. Chen, Seema Hai, Margaret L. Gulley and Rajyalakshmi Luthra --Quantification of BK Viral Load /Hai Wu and Jianli Dong.Molecular Diagnosis and Epidemiology of Rabies /Rodney E. Rohde and Bonny C. Mayes --Pyrosequencing for Bacterial Identification /Laura Millecker and Ruth Ann Luna --Other Pathogens of Significant Public Health Concern /Chris L. McGowin, Rodney E. Rohde and Greg C. Whitlock --Part 3.Clinical Molecular Oncology Testing --Gene Rearrangements Testing /Siby Sebastian, Juan Du and Rizwan Naeem --Mutation Analysis in Cancer /Keyur Pravinchandra Patel, John Galbincea and Rajyalakshmi Luthra --Minimal Residual Disease /Wesley O. Greaves and Rajyalakshmi Luthra --Pyrosequencing in Cancer /Shalini Verma, Bedia A. Barkoh and Rajyalakshmi Luthra --Clinical Applications of Microarrays in Cancer /Marilyn M. Li, Ankita Patel and Xiaofeng Hu --Basic Theories and Clinical Applications of Molecular Flow Cytometry /Hua-Kang Wu, Hongli Chen and Peter C. Hu --Part 4.Clinical Molecular Pre/Postnatal Testing --Molecular Prenatal Diagnostic Testing /Joanna Wiszniewska and Christine M. Eng --PCR Based Diagnosis of Fragile X Syndrome /Daniel J. Dykas and Allen E. Bale --Part 5.Human Identity Testing --Microsatellite Testing Short Tandem Repeat Profile Generation /Robin DeVille Guidry and Laura Gahn --Parentage /Laura Gahn and Robin DeVille Guidry --Part 6.Clinical Molecular Training --Diagnostic Molecular Training /Peter C. Hu, Patrick Alan Lennon and Madhuri R. Hegde --Molecular Diagnostics Point of Care Testing Training /Chang W. Lee and Peter C. Hu.
  • Modern molecular biology 2010, Springer
    Genome-Scale Analysis of Data from High-Throughput Technologies / Sarah J. Wheelan -- Analysis of Inherited and Acquired Genetic Variation / Srinivasan Yegnasubramanian and William B. Isaacs -- Examining DNA-Protein Interactions with Genome-Wide Chromatin Immunoprecipitation Analysis / Esteban Ballestar and Manel Esteller -- Genome-Wide DNA Methylation Analysis in Cancer Research / Srinivasan Yegnasubramanian and William G. Nelson -- Use of Expression Microarrays in Cancer Research / Jun Luo and Yidong Chen -- Signal Sequencing for Gene Expression Profiling / Biaoyang Lin, Jeremy Wechsler and Leroy Hood -- Mass Spectrometry Based Proteomics in Cancer Research / Mohamad A. Abbani, Parag Mallick and Maryann S. Vogelsang -- Tissue Microarrays in Cancer Research / Toby C. Cornish and Angelo M. De Marzo.
  • "This book brings together leading international experts to discuss recent advances in the regulation of presynaptic voltage-gated Ca2+ channels (VGCCs), key signal transducers that represent one of the most widely modulated proteins in the body. It is now commonly accepted that presence of the VGCC complex defines an excitable cell. At a basic level, VGCCs transduce membrane potential change to chemical neurotransmitter release at presynaptic terminals. However, on-going scientific research, presented here, in areas including neuroscience, electrophysiology, pharmacology, biochemistry and, increasingly, proteomics, has revealed the widespread nature of modulation of the presynaptic VGCC complex. This book reviews and discusses the following topics: The fundamental role of the VGCC pore-forming CaVa subunit, and some of their binding partners, in presynaptic function and synaptic plasticity. Modulation of presynaptic CaVa subunits by auxiliary CaVb and a2d subunits and by their major interaction partners, such as active zone scaffolding proteins, synaptic proteins, G proteins and small GTPases, which, together, contribute to the VGCC proteome. Work at the cutting edge of research, including how direct electrophysiology recordings from presynaptic terminals and introduction of synthetic CaVa peptides into presynaptic terminals has expanded our knowledge of VGCC function. Evidence emerging over the last decade demonstrating that VGCC subunits represent bona fide molecular targets for therapeutic drug discovery. This development is illustrated by the introduction of the CaV2.2 blocker ziconotide, which represents an important proof-of-concept, but is best exemplified by the emergence of gabapentinoids, which bind the VGCC auxiliary a2d subunit, as first-line treatments for chronic neuropathic pain. Throughout, chapters are accompanied with illustrative Tables and Figure providing a useful and comprehensive summary of the current state-of-play in this area of significant therapeutic interest. Work described here also provides a solid basis for future research in this important area." -- Back cover.
  • Methods for labeling non-phagocytic cells with MR contrast agents / Joseph A. Frank, Stasia A. Anderson, & Ali S. Arbab -- Cellular imaging of cell transplants / Michel Modo & Jeff W.M. Bulte -- Cellular and molecular imaging of the diabetic pancreas / Zdravka Medarova & Anna Moore -- Functional cellular imaging with manganese / Vincent van Meir & Annemie van der Linden -- Translating promising experimental approaches to clinical trials / Adrian D. Nunn -- An outlook on cellular and molecular MR imaging / Michel Modo & Jeff W.M. Bulte.What is molecular and cellular imaging? / Michel Modo & Jeff W.M. Bulte -- The physicochemical principles of MR contrast agents / Peter Caravan -- Paramagnetic contract agents / Silvio Aime ... [et al.] -- Superparamagnetic contrast agents / Claire Corot ... [et al.] -- Physical mechanism and applications of cest contrast agents / Mike McMahon ... [et al.] -- Paracest contrast agents / A. Dean Sherry & Mark Woods -- Genetic approaches for modulating MRI contrast / Eric Ahrens, Williams F. Goins, Clinton S. Robinson -- Molecular and functional mr imaging of cancer / Michael A. Jacobs ... [et al.] -- Molecular imaging of atherosclerosis with magnetic resonance / Karen C. Briley-Saebo ... [et al.] -- Molecular imaging of apoptosis / Mikko Kettunen & Kevin M. Brindle -- Molecular imaging of reporter genes / Keren Ziv ... [et al.] -- Pharmacological MRI as a molecular imaging technique / Y. Iris Chen & Bruce Jenkins -- Cellular imaging of the liver using contrast agents / N. Cem Balci & Sukru Mehmet Erturk -- Cellular imaging of macrophage activity in infection and inflammation / Martin Rausch ... [et al.] -- Cellular imaging of macrophage activity in stroke / Ralph Weber & Mathias Hoehn -- Magnetic resonance imaging in developmental biology / Cyrus Papan, J. Michael Tyszka, Russell E. Jacobs --
  • Part 1.Molecular Biology of Selected Hemato-oncologic Diseases --Molecular Biology of Acute Lymphoblastic Leukemia /Małgorzata Dawidowska, Monika D. Kraszewska, Katarzyna Derwich and Tomasz Szczepański --Genetic Mechanisms and Molecular Markers of Neoplastic Transformation in Acute Myeloid Leukemia /Agata A. Filip, Marta Libura, Sebastian Giebel and Olga Haus --Molecular Pathogenesis of Aggressive B-cell Lymphomas /Przemysław Juszczyński and Krzysztof Warzocha --Molecular Biology and Classification of Multiple Myeloma /Anna Dmoszyńska and Norbert Grząśko --Chronic Lymphocytic Leukemia /Anton W. Langerak and Yorick Sandberg --Molecular Biology of Chronic Myeloid Leukemia /Tomasz Sacha, Kajetana Foryciarz and Aleksander B. Skotnicki --Molecular Biology of Myelodysplastic Syndromes /Francesc Solé --Myeloproliferative Neoplasms /Andrzej Hellmann, Maria Bieniaszewska, Witold Prejzner and Aleksandra Leszczyńska --Part 2.Diagnostics and Monitoring of Therapy of Hemato-oncologic Deseases --Flow Cytometric Immunophenotyping as Diagnostic Tool of Hematopoietic Malignancies /Łukasz Sędek, Juan Flores-Montero, Joanna Bulsa, Susana Barrena and Julia Almeida, et al. --Cytogenetics in Hematology /Olga Haus, Anna Poluha and Katarzyna Skonieczka --Monitoring of Minimal Residual Disease in Acute Lymphoblastic Leukemia /Tomasz Szczepański, Małgorzata Dawidowska and Katarzyna Derwich --Gene Expression Profiling in Hematologic Malignancies /Przemysław Juszczyński, Bjoern Chapuy, Małgorzata Szczepaniak and Krzysztof Warzocha --Part 3.Molecular Procedures Involved in Hematopoietic Stem Cell Transplantation --Allogeneic Transplantation of Hematopoietic Stem Cells /Jacek Wachowiak --Genetic Basis of Donor-Recipient Matching in Allogeneic Transplantation of Hematopoietic Stem Cells /Jacek Nowak and Jacek Wachowiak --Chimerism Following Allogeneic Transplantation of Hematopoietic Stem Cells /Małgorzata Dawidowska, Katarzyna Guz, Ewa Brojer, Jacek Wachowiak and Michał Witt --Peritransplantation Monitoring of Minimal Residual Disease in Acute Lymphoblastic Leukemia /Małgorzata Dawidowska, Katarzyna Derwich and Tomasz Szczepański --Biobanks of Cellular Material /Wiesław Wiktor-Jędrzejczak and Elżbieta Urbanowska --Part 4.Molecular Diagnostic Protocols --Biobanking of Cellular Material /Anna Poluha and Elżbieta Urbanowska --Isolation of Mononuclear Cells from Human Blood and Bone Marrow by Density Gradient Centrifugation /Małgorzata Dawidowska --Molecular Techniques Commonly Used in Hemato-oncology /Monika D. Kraszewska and Ewa Ziętkiewicz --Genetic Methods of HLA Typing /Jacek Nowak, Renata Mika-Witkowska and Elżbieta Graczyk-Pol --Post-Transplant Chimerism Analysis Through STR-PCR and RQ-PCR /Małgorzata Dawidowska, Katarzyna Guz, Agnieszka Orzińska, Justyna Smolarczyk-Wodzyńska and Monika D. Kraszewska, et al. --Analysis of Minimal Residual Disease with the Use of Rearrangements of Ig/TCR Genes Through RQ-PCR /Małgorzata Dawidowska, Vincent H. J. van der Velden, Michał Witt and Tomasz Szczepański --Molecular Diagnostics of Acute Myeloblastic Leukemia /Marta Libura, Agata A. Filip and Olga Haus --Assessment of the Presence and the Level of BCR-ABL Fusion Gene Expression and Mutational Status in ABL Kinase Domain /Sylwia Czekalska, Magdalena Zawada and Izabela Florek --Studies of Rearrangements and Somatic Hypermutation of IGHV Genes in Chronic Lymphocytic Leukemia /Anton W. Langerak, Richard Rosenquist, Paolo Ghia, Chrysoula Belessi and Kostas Stamatopoulos, et al. --Molecular Biology Methods in the Diagnosis of Multiple Myeloma /Anna Dmoszyńska and Sylwia Chocholska --Molecular Methods in Myeloproliferative Neoplasms /Aleksandra Leszczyńska, Witold Prejzner, Maria Bieniaszewska and Andrzej Hellmann --Informed Consent for Participation in Research Project /Małgorzata Dawidowska and Michał Witt.
  • Protein misassembly: macromolecular crowding and molecular chaperones / R. John Ellis -- The cellular "networking" of mammalian HSP27 and its functions in the control of protein folding, redox state and apoptosis / André-Patrick Arrigo -- Molecular interaction network of the HSP90 chaperone system / Rongmin Zhao and Walid A. Houry -- Organization of the functions and components of the endoplasmic reticulum / Yuichiro Shimizu and Linda M. Hendershot -- Molecular crime and cellular punishment: active detoxification of misfolded and aggregated proteins in the cell by the chaperone and protease networks / Marie-Pierre Hinault and Pierre Goloubinoff -- Chaperones as parts of cellular networks / Peter Csermely, Csaba Söti and Gregory L. Blatch -- Chaperones as parts of organelle networks / György Szabadkai and Rosario Rizzuto -- Heat shock factor 1 as a coordinator of stress and developmental pathways / Julius Anckar and Lea Sistonen -- Chaperone regulation of the heat shock protein response / Richard Voellmy and Frank Boellmann -- Mechanisms of activation and regulation of the heat shock-sensitive signaling pathways / Sébastien Ian Nadeau and Jacques Landry -- Membrane-regulated stress response: a theoretical and practical approach / László Vígh ... [et al.] -- Beyond the lipid hypothesis: mechanisms underlying phenotypic plasticity in inducible cold tolerance / Scott A.L. Hayward ... [et al.] -- Trehalose as a "chemical chaperone:" fact and fantasy / John H. Crowe -- Chaperones as part of immune networks / Zoltán Prohászka -- The stress of misfolded proteins: C. elegans models for neurodegenerative disease and aging / Heather R. Brignull, James F. Morley and Richard I. Morimoto -- HSP90 and developmental networks / Suzannah Rutherford, Jennifer R. Knapp and Peter Csermely.
  • Basic principles of fluorescence and energy transfer / Larry E. Morrison -- Multiplex detection of mutations / David S. Perlin, Sergey Balashov, and Steven Park -- Detection of salmonella species in foodstuffs / Arvind A. Bhagwat ... [et al.] -- Identification of homozygous transgenic mice by genomic real-time PCR / Gunter Schmidtke and Marcus Groettrup -- Quantitative analysis of gene expression relative to 18S rRNA in carcinoma samples using the LightCycler instrument and a SYBR greenI-based assay : determining FAT10 mRNA levels in hepatocellular carcinoma / Sebastian Lukasiak ... [et al.] -- Absolute quantitation of feline leukemia virus proviral DNA and viral RNA loads by TaqMan real-time PCR and RT-PCR / Valentino Cattori and Regina Hofmann-Lehmann -- High-throughput real-time PCR / Thomas D. Schmittgen, Eun Joo Lee, and Jinmai Jiang -- Design and use of scorpions fluorescent signalling molecules / Rachael Carters ... [et al.] --Hybridization probe pairs and single-labeled probes : an alternative approach for genotyping and quantification / Thomas Froehlich and Oliver Geulen -- EasyBeacons for the detection of methylation status of single CpG duplets / Ulf B. Christensen -- Quenched autoligation probes / Adam P. Silverman, Hiroshi Abe, and Eric T. Kool -- HyBeacon probes for rapid DNA sequence detection and allele discrimination / David J. French ... [et al.] -- FIT-probes in real-time PCR / Elke Socher and Oliver Seitz -- SNP genotyping by unlabeled probe melting analysis / Maria Erali, Robert Palais, and Carl Wittwer -- Molecular beacons for protein-DNA interaction studies / Jun Li ... [et al.] -- DNA polymerase profiling / D. Summerer -- Modular reporter hairpin ribozymes for analyzing molecular interactions / S. Hani Najafi-Shoushtari and Michael Famulok -- Screening of molecular interactions using reporter hammerhead ribozymes / Jörg S. Hartig and Michael Famulok.
  • Molecular biology of the cell. 4th ed. 2002, NCBI Bookshelf, Fulltext accessible by its search box
  • This book presents the cellular details and the basic molecular biology approaches for understanding cardiac valvular disease. It provides novel cellular targets for developing future clinical trials and comprehensive clinical discussion of this expanding field. Molecular Biology of Valvular Heart Disease will guide physicians on the potential medical therapies to treat valvular heart disease while providing a platform for cellular targeting of valvular heart disease. Residents and fellows in cardiology, interventional cardiology, cardiac surgery, and current and future valve biologists alike will find this book to be an invaluable resource for developing further interest and understanding of the cellular basis for cardiac valvular disease treatment.
  • Molecular biomethods handbook. 2nd ed. 2008, Springer Protocols
  • This volume of the series Biophysics for the Life Sciences focuses on the conceptual framework and major research tools of contemporary molecular biophysics. It is designed to enable non-specialists -both students and professionals in other fields - to understand how these approaches can be used across the biosciences and in medicine, agriculture, biotechnology, pharmaceutical development and other fields. The scope of this volume is appropriate for advanced undergraduate and graduate courses in biophysics and biophysical chemistry. The book begins with an overview of the development of molecular biophysics and a brief survey of structural, physical, and chemical principles. Subsequent chapters written by experts present, with examples, the major experimental methods: optical spectroscopy, X-ray and neutron diffraction and scattering, nuclear magnetic resonance, electron paramagnetic resonance, mass spectrometry, and single molecule methods. The relationship between the biophysical properties of biological macromolecules and their roles as molecular machines is emphasized throughout and illustrated with three examples DNA helicases, rotary motor ATPases, and myosin.The concluding chapter discusses future prospects in X-ray and neutron scattering, mass spectrometry, and pharmaceutical development.
  • Carcinogens and mutagens -- Whole animal carcinogenicity bioassays -- Molecular mechanisms of action of selected organic carcinogens -- Binding of carinogens to DNA and covalent adducts and DNA damage - PAH, aromatic amines, nitro-aromatic compounds, and halogenated compounds -- Cellular oncogenes and carcinogenesis -- Tumor suppressor genes -- Hepatitis B, Hepatitis C, and hepatocellular carcinoma -- Oncongenesis in transgenic and knockout mice -- Chemically induced morphological and neoplastic transformation in C3H/10T1/2 C1 8 mouse embryo cells -- Radiation carcinogenesis -- DNA microarrays and computational analysis of DNA microarray data in cancer research -- Application of proteomics in basic biological sciences and cancer -- Overview of human cancer induction and human exposure to carcinogens -- Complex mixtures of chemical carcinogens: principles of action and human cancer -- Lung cancer -- Breast cancer -- Cancer of the prostate - Mechanisms of molecular carcinogenesis -- Skin cancer: epidemiology, clinical manifestations, and genetic and molecular aspects -- Cell and molecular biology of cancer of the brain --Thyroid cancer: molecular biology and clinical aspects -- Chemoprevention of chemical carcinogenesis and human cancer -- Carcinogen biomarkers and exposure assessment -- Risk assessment for chemical carcinogens -- Prevention and regulation approaches to carcinogens.
  • Molecular cell biology. 4th ed. 2000, NCBI Bookshelf
  • Molecular cellular microbiology 2002, ScienceDirect
  • Molecular cytogenetics 2002, Springer Protocols
  • Molecular diagnostics 2014, Springer
    Molecular Diagnostics: 12 Tests That Changed Everything focuses on specific laboratory tests and emphasizes how the availability of these tests has altered how clinicians treat their patients. Presented as a standard outline, each chapter focuses on a specific molecular test and provides background on the test and its clinical applications. Continuing with some discussion on how the test is done, interpreted, and used clinically, each chapter then concludes with a discussion of how that test has changed the way medicine is practiced with respect to the disease or condition in question. Authored by renowned experts in the field, Molecular Diagnostics: 12 Tests That Changed Everything is a valuable resource for pathologists, pathology residents, laboratory directors, development personnel, lab medicine fellows and those working in the broad area of oncology, infectious disease and genetics.
  • Molecular diagnostics 2010, ScienceDirect
    Advances in genomic and proteomic profiling of disease have transformed the field of molecular diagnostics, thus leading the way for a major revolution in clinical practice. While the range of tests for disease detection and staging is rapidly expanding, many physicians lack the knowledge required to determine which tests to order and how to interpret results. This handbook provides a complete guide to the use and interpretation of molecular testing in the clinical arena. No other available resource offers this emphasis, comprehensive scope, and practical utility in the clinical setting.
  • Molecular diagnostics 2010, CRCnetBASE
    This unique book provides a thorough overview of developing molecular cancer diagnostic assays, which are the prerequisites for optimal solutions within personalized cancer medicine. The book takes the reader through definitions of the pharmacodiagnostic concept, historical perspectives of the early steps into molecular cancer diagnostics linked to therapy, the basis of different diagnostic molecular techniques, ongoing research, drug-diagnostic co-development, assay validation, clinical trial methodology, regulatory issues around pharmacodiagnostics and future aspects within personalized cancer medicine.The book is the first of its kind to cover relevant subjects around molecular cancer diagnostics when used as important drivers in personalized cancer medicine. The different chapters of the book are authored by key opinion leaders, each representing their specialized areas, which provide the reader with expertise knowledge in the field.
  • Molecular diagnostics. 2nd ed. 2010, ScienceDirect
    Chapter 1. Molecular Diagnostics: Past, Present, and Future / George P. Patrinos, Wilhelm J. Ansorge -- Chapter 2 . Allele-Specific Mutation Detection / Aglaia Athanassiadou, Eleana F. Stavrou, Adamandia Papachatzopoulou, George P. Patrinos -- Chapter 3. Enzymatic and Chemical Cleavage Methods to Identify Genetic Variation / Chinh T. Bui, Emmanuelle Nicolas, Georgina Sallmann, Maria Chiotis, Andreana Lambrinakos, Kylee Rees, Ian Trounce, Richard G.H. Cotton, Lauryn Blakesley, Andrew K. Godwin, Anthony T. Yeung -- Chapter 4. Mutation Detection by Single Strand Conformation Polymorphism and Heteroduplex Analysis / Panayiotis G. Menounos, George P. Patrinos -- Chapter 5. Capillary Electrophoresis / Anja Bosserhoff, Claus Hellerbrand -- Chapter 6. Temperature and Denaturing Gradient Gel Electrophoresis / Hartmut Peters, Peter N. Robinson -- Chapter 7. Real-Time Polymerase Chain Reaction / Lut Overbergh, Anna-Paula Giulietti, Dirk Valckx, Chantal Mathieu -- Chapter 8 - Pyrosequencing / Sharon Marsh -- Chapter 9. Application of Padlock and Selector Probes in Molecular Medicine / Mats Nilsson, Chatarina Larsson, Johan Stenberg, Jenny Göransson, Ida Grundberg, Magnus Isaksson, Tim Conze, Sara Henriksson -- Chapter 10. Molecular Cytogenetics in Molecular Diagnostics / Holger Tönnies -- Chapter 11. Analysis of Human Splicing Defects Using Hybrid Minigenes / Franco Pagani, Francisco E. Baralle -- Chapter 12. Detection of Genomic Duplications and Deletions / Graham R. Taylor, Carol A. Delaney -- Chapter 13. Multiplex Ligation-Dependent Probe Amplification (MLPA) and Methylation-Specific (MS)-MLPA: Multiplex Detection of DNA/mRNA Copy Number and Methylation Changes / Eline M. Sepers, Jan P. Schouten -- Chapter 14. Molecular Techniques for DNA Methylation Studies / Jörg Tost, Ivo G. Gut -- Chapter 15. High-Resolution Melting Curve Analysis for Molecular Diagnostics / Jared S. Farrar, Gudrun H. Reed, Carl T. Wittwer -- Chapter 16. DNA Microarrays and Genetic Testing / Lars Dyrskjøt, Karina Dalsgaard-Sørensen, Marie Stampe-Ostenfeld, Karin Birkenkamp-Demtroder, Kasper Thorsen, Claus L. Andersen, Mogens Kruhøffer, Jens L. Jensen, Torben F. Ørntoft -- Chapter 17. Arrayed Primer Extension Microarrays for Molecular Diagnostics / Neeme Tonisson, Eneli Oitmaa, Kaarel Krjutskov, Janne Pullat, Ilona Lind, Merike Leego, Ants Kurg, Andres Metspalu -- Chapter 18. Application of Proteomics to Disease Diagnostics / Samir Hanash, Ji Qiu, Vitor Faca -- Chapter 19. RNA-Based Variant Detection: The Protein Truncation Test / Johan T. den Dunnen -- Chapter 20. Protein Diagnostics by Proximity Ligation: Combining Multiple Recognition and DNA Amplification for Improved Protein Analyses / Karl-Johan Leuchowius, Ola Söderberg, Masood Kamali-Moghaddam, Malin Jarvius, Irene Weibrecht, Katerina Pardali, Ulf Landegren --Chapter 21. Mass Spectrometry and its Applications to Functional Proteomics / Thomas Köcher, Giulio Superti-Furga -- Chapter 22. Pharmacogenetics and Pharmacogenomics: Impact on Drug Discovery and Clinical Care / Minoli Perera, Federico Innocenti -- Chapter 23. Nutrigenomics: Integrating Genomic Approaches into Nutrition Research / Lynette R. Ferguson, Martin Philpott, Matthew P.G. Barnett -- Chapter 24. Novel Next-Generation DNA Sequencing Techniques for Ultra High-Throughput Applications in Bio-Medicine / Wilhelm J. Ansorge -- Chapter 25. Locus-Specific and National/Ethnic Mutation Databases: Emerging Tools for Molecular Diagnostics / George P. Patrinos -- Chapter 26. Molecular Diagnostic Applications in Forensic Science / Bruce Budowle, John V. Planz, Rowan Campbell, Arthur J. Eisenberg -- Chapter 27. Mass Disaster Victim Identification Assisted by DNA Typing / Daniel Corach -- Chapter 28. Detection of Highly Pathogenic Viral Agents: Implications for Therapeutics, Vaccines and Biodefense / Kylene Kehn-Hall, Sina Bavari -- Chapter 29. Identification of Genetically Modified Organisms / Farid E. Ahmed -- Chapter 30. Molecular Diagnostics and Comparative Genomics in Clinical Microbiology / Alex van Belkum -- Chapter 31. Genetic Monitoring of Laboratory Rodents / Jean-Louis Guénet, Fernando J. Benavides -- Chapter 32. Safety Analysis in Retroviral Gene Therapy: Identifying Virus Integration Sites in Gene-Modified Cells / Stephanie Laufs, Luisa Schubert, Patrick Maier, W. Jens Zeller, Stefan Fruehauf -- Chapter 33. Preimplantation Genetic Diagnosis / Martine de Rycke, Karen Sermon -- Chapter 34. Automated DNA Hybridization and Detection / Bert Gold -- Chapter 35. The Use of Microelectronic-Based Techniques in Molecular Diagnostic Assays / Piotr Grodzinski, Michael Ward, Robin Liu, Kathryn Scott, Saul Surrey, Paolo Fortina -- Chapter 36. Human Gene Patents and Genetic Testing / Timothy Caulfield, Yann Joly -- Chapter 37. Genetic Counseling and Ethics in Molecular Diagnostics / Mary Petrou -- Chapter 38. Genetic Testing and Psychology / Andrea Farkas Patenaude -- Chapter 39. General Considerations Concerning Safety in Biomedical Research Laboratories / William E. Grizzle, Walter C. Bell, Jerry Fredenburgh -- Chapter 40. Quality Management in the Laboratory / David Burnett.
  • Classical endocrinology --Nonclassical endocrinology --Overview of receptors and transducers --Kinetics --Nuclear receptors --Membrane receptors --Receptor regulation --G proteins and cyclic nucleotides --Calcium, calmodulin, and phospholipids --Miscellaneous second messengers --Phosphorylation and other nontranscriptional effects of hormones --Hormonally regulated transcription factors --Modifications and conformations of DNA and nuclear proteins --Posttranscriptional control --Pathogen-endocrine system interactions --Molecular bases of endocrinopathies --Molecular evolution of the endocrine system.
  • Molecular Genetic Pathology, Second Edition presents up-to-date material containing fundamental information relevant to the clinical practice of molecular genetic pathology. Fully updated in each area and expanded to include identification of new infectious agents (H1N1), new diagnostic biomarkers and biomarkers for targeted cancer therapy. This edition is also expanded to include the many new technologies that have become available in the past few years such as microarray (AmpliChip) and high throughput deep sequencing, which will certainly change the clinical practice of molecular genetic pathology. Part I examines the clinical aspects of molecular biology and technology, genomics. Poharmacogenomics and proteomics, while Part II covers the clinically relevant information of medical genetics, hematology, transfusion medicine, oncology, and forensic pathology. Supplemented with many useful figures and presented in a helpful bullet-point format, Molecular Genetic Pathology, Second Edition provides a unique reference for practicing pathologists, oncologists, internists, and medical genetisists. Furthermore, a book with concise overview of the field and highlights of clinical applications will certainly help those trainees, including pathology residents, genetics residents, molecular pathology fellows, internists, hematology/oncology fellows, and medical technologists in preparing for their board examination/certification.
  • Molecular imaging 2004, Springer
  • This searchable database is a collection of in vivo molecular imaging agents developed for positron emission tomography (PET), single photon emission computed tomography (SPECT), magnetic resonance imaging (MRI), ultrasound (US), computed tomography (CT), and optical imaging. MICAD, a key component of the "Molecular Libraries and Imaging" program of the NIH Roadmap, is being developed by NCBI, the National Center for Biotechnology Information".
  • Part 1. Introduction to Glyco-Experiences -- Serendipity in Scientific Discoveries: Some Examples in Glycosciences / Yuan-Chuan Lee -- My 30-Year Devotion to the N-Linked Oligosaccharide Structures / Noriko Takahashi -- Part 2. Blood Group ABH/Le-related Antigens -- Human Blood Group ABH/Ii, Lea,b,x,y, and Sialyl Lea,x Glycotopes; Internal Structures; and Immunochemical Roles of Human Ovarian Cyst Glycoproteins / Albert M. Wu -- Lewis Glyco-Epitopes: Structure, Biosynthesis, and Functions / Hui-Li Chen -- A Unique Endo-β-Galactosidase that Cleaves Both Blood Group A and B Glycotopes / Su-Chen Li, Kimberly M. Anderson and Yu-Teh Li -- Part 3. Lectins -- Recognition Roles of Mammalian Structural Units and Polyvalency in Lectin-Glycan Interactions / Albert M. Wu, Jia-Haw Liu, Tanuja Singh and Zhangung Yang -- Adhesion/Growth-Regulatory Galectins: Insights into Their Ligand Selectivity Using Natural Glycoproteins and Glycotopes / Albert M. Wu, Tanuja Singh, Jia-Hau Liu, Sabine André and Martin Lensch, et al. -- Glycotope Structures and Intramolecular Affinity Factors of Plant Lectins for Tn/T Antigens / Pierre Rougé, Willy J. Peumans, Els J. M. Van Damme, Annick Barre and Tanuja Singh, et al. -- The Five Bacterial Lectins (PA-IL, PA-IIL, RSL, RS-IIL, and CV-IIL): Interactions with Diverse Animal Cells and Glycoproteins / Nechama Gilboa-Garber, Keren D. Zinger-Yosovich, Dvora Sudakevitz, Batya Lerrer and Anne Imberty, et al. -- On the Differential Sialic Acid Specificity of Lectins from Different Parts of Saraca indica / Bishnu P. Chatterjee and Mainak Majumder -- Regulation of Lectin Production by the Human Pathogens Pseudomonas aeruginosa and Chromobacterium violaceum: Effects of Choline, Trehalose, and Ethanol / Nachman C. Garber, Keren D. Zinger-Yosovich, Dvora Sudakevitz, Itschak Axelrad and Nechama Gilboa-Garber -- Non-carbohydrate-Mediated Interaction of Lectins with Plant Proteins / Jared Q. Gerlach, Michelle Kilcoyne, Seron Eaton, Veer Bhavanandan and Lokesh Joshi -- Novel Concepts About the Role of Lectins in the Plant Cell / Els J. M. Van Dammes, Elke Fouquaert, Nausicaä Lannoo, Gianni Vandenborre and Dieter Schouppe, et al. --Part 4. Structures and Functions of Glycolipids -- Role of Gangliosides and Plasma Membrane-Associated Sialidase in the Process of Cell Membrane Organization / Sandro Sonnino, Vanna Chigorno, Massimo Aureli, Anie Priscilla Masilamani and Manuela Valsecchi, et al. -- 9-O-Acetyl GD3 in Lymphoid and Erythroid Cells / Kankana Mukherjee, Suchandra Chowdhury, Susmita Mondal, Chandan Mandal and Sarmila Chandra, et al. -- GM3 Upregulation of Matrix Metalloproteinase-9 Possibly Through PI3K, AKT, RICTOR, RHOGDI-2, and TNF-A Pathways in Mouse Melanoma B16 Cells / Pu Wang, Xiaodong Wang, Peixing Wu, Jinghai Zhang and Toshinori Sato, et al. -- Pathological Roles of Ganglioside Mimicry in Guillain-Barré Syndrome and Related Neuropathies / Robert K. Yu, Toshio Ariga, Seigo Usuki and Ken-ichi Kaida -- Structure and Function of Glycolipids in Thermophilic Bacteria / Feng-Ling Yang, Yu-Liang Yang and Shih-Hsiung Wu -- Lipooligosaccharides of Neisseria Species: Similarity Between N. polysaccharea and N. meningitidis LOSs / Chao-Ming Tsai -- Part 5. Structures and Functions of Complex Carbohydrates -- Roles for N- and O-Glycans in Early Mouse Development / Suzannah A. Williams and Pamela Stanley -- Glycobiology in the Field of Gerontology (Glycogerontology) / Akira Kobata -- Galectins in Regulation of Apoptosis / Fu-Tong Liu, Ri-Yao Yang, Jun Saegusa, Huan-Yuan Chen and Daniel K. Hsu -- Avian and Human Influenza Virus Receptors and Their Distribution / Yasuo Suzuki -- Importance of a Factor VIIIc-Like Glycoprotein Expressed in Capillary Endothelial Cells (eFactor VIIIc) in Angiogenesis / Dipak K. Banerjee, Caroline M. Oliveira, José J. Tavárez, Viswa N. Katiyar and Subiman Saha, et al. -- Mucin O-Glycan Branching Enzymes: Structure, Function, and Gene Regulation / Pi-Wan Cheng and Prakash Radhakrishnan -- Studying Carbohydrate Self-Recognition in Marine Sponges Using Synthetic Aggregation Factor Epitopes / Johannis P. Kamerling and Adriana Carvalho de Souza -- Docking of Chitin Oligomers and Nod Factors on Lectin Domains of the LysM-RLK Receptors in the Medicago-Rhizobium Symbiosis / Pierre Rougé, Wim Nerinckx, Clare Gough, Jean-Jacques Bono and Annick Barre -- Part 6. Glycoimmunology -- O-Acetylated Sialic Acids and Their Role in Immune Defense / Roland Schauer, G. Vinayaga Srinivasan, Dirk Wipfler, Bernhard Kniep and Reinhard Schwartz-Albiez -- Sialylated and Sulfated Carbohydrate Ligands for Selectins and Siglecs: Involvement in Traffic and Homing of Human Memory T and B Lymphocytes / Reiji Kannagi, Katsuyuki Ohmori, Guo-Yun Chen, Keiko Miyazaki and Mineko Izawa, et al. -- Diversity of Natural Anti-α-Galactosyl Antibodies in Human Serum / Elwira Lisowska and Maria Duk -- Significance of Serum Glycoprotein Profiles in Spontaneous Tolerance After Liver Allograft Transplantation / Pei-Weng Wang and Tai-Long Pan -- Part 7. Glycobiology of Cancer -- Hematogenous Metastasis: Roles of CD44v and Alternative Sialofucosylated Selectin Ligands / Konstantinos Konstantopoulos and Susan N. Thomas -- Regulation of Glycosyltransferase Genes in Apoptotic Breast Cancer Cells Induced by l-PPMP and Cisplatin / Rui Ma, Elizabeth A. Hopp, N. Matthew Decker, Audrey Loucks and James R. Johnson, et al. -- Aberrant Glycosphingolipid Expression and Membrane Organization in Tumor Cells: Consequences on Tumor-Host Interactions / Alessandro Prinetti, Simona Prioni, Nicoletta Loberto, Massimo Aureli and Valentina Nocco, et al. -- Human KDN (Deaminated Neuraminic Acid) and Its Elevated Expression in Cancer Cells: Mechanism and Significance / Sadako Inoue, Ken Kitajima, Chihiro Sato and Shinji Go -- Polysialic Acid Bioengineering of Cancer and Neuronal Cells by N-Acyl Sialic Acid Precursor Treatment / Robert A. Pon, Wei Zou and Harold J. Jennings -- Part 8. Glyco Applications -- Synthesis of Hemagglutinin-Binding Trisaccharides / Cheng-Chung Wang, Suvarn S. Kulkarni, Medel Manuel L. Zulueta and Shang-Cheng Hung -- Fabrication and Applications of Glyconanomaterials / Po-Chiao Lin, Avijit Kumar Adak and Chun-Cheng Lin -- Glycan Arrays to Decipher the Specificity of Plant Lectins / Els J. M. Van Damme, David F. Smith, Richard Cummings and Willy J. Peumans -- Targeting C-Type Lectin for the Treatment of Flavivirus Infections / Szu-Ting Chen, Yi-Ling Lin, Ming-Ting Huang, Ming-Fang Wu and Shie-Liang Hsieh.
  • 1. Brain tumors -- 2. Immunophenotypic characterizaton of infiltrating poly- and mononuclear cells in childhood brain tumors -- 3. Experimental therapies in brain tumors -- 4. Biologic anti-neoplastic therapies -- 5. The lymphokine activated killer (LAK) cell phenomenon -- 6. Angiogenesis inhibition in anti-neoplastic therapy -- 7. Antigen presentation by dendritic cells and their significance in anti-neoplastic immunotherapy -- 8. Genetically engineered antibodies for direct anti-neoplastic treatment and systematic delivery of various therapeutic agents to cancer cells -- 9. Cancer-testis antigens: promising targets for antigen directed anti-neoplastic immunotherapy -- 10. Materials and methods -- 11. Index.
  • Speakers at the Symposium / Hartmann, D. -- Hematopoietic stem cell aging and fate decision / Illing, A., Ju, Z. -- Alterations of systemic environment impair stem cell function during aging / Song, Z., Ju, Z. -- Novel insights into regulation of stem cell aging by aging of the niche and alterations in systemic factors / Geiger, H. -- Aging and hematopoietic malignancies / Gompf, A. -- Intestinal stem cell aging / Sperka, T., Rudolph, K.L. -- Molecular mechanisms of aging in muscle stem cells / Tümpel, S. -- Free radicals and stem cell aging / Guachalla, L.M. -- DNA damage, checkpoint responses, and cell cycle control in aging stem cells / Sperka, T., Nalapareddy, K., Rudolph, K.L.
  • Theories of carcinogenesis -- Physioloigic correlates of malignancy -- Cell division and survival -- Cellular senescence -- Invasiveness -- DNA repair -- Epigenetic regulation of cancer-associated gene products -- Interaction of the groups of cancer-related gene products -- Structural growth control -- The organ preference of metastasis formation -- Angiogenesis -- Interactions with the immune system -- Endocrine dysregulation -- Dormancy and minimal residual disease -- Epithelial tumors -- Hematologic malignancies -- Mesenchymal tumors -- Neurologic tumors -- Tumors of serous cavities -- Embryonic tumors.
  • Molecular medical microbiology 2002, ScienceDirect
  • Molecular medical parasitology 2003, ScienceDirect
    Sect. I. Molecular Biology -- Ch. 1. Parasite genomics -- Ch. 2. RNA processing in parasitic organisms: trans-splicing and RNA editing -- Ch. 3. Transcription -- Ch. 4. Post-transcriptional regulation -- Ch. 5. Antigenic variation in African trypanosomes and malaria -- Ch. 6. Genetic and genomic approaches to the analysis of leishmania virulence -- Sect. II. Biochemistry and Cell Biology: Protozoa -- Ch. 7. Energy metabolism -- Ch. 8. Amino acid and protein metabolism -- Ch. 9. Purine and pyrimidine transport and metabolism -- Ch. 10. Trypanosomatid surface and secreted carbohydrates -- Ch. 11. Intracellular signaling -- Ch. 12. Plastids, mitochondria, and hydrogenosomes -- Sect. III. Biochemistry and Cell Biology: Helminths -- Ch. 13. Helminth surfaces: structural, molecular and functional properties -- Ch. 14. Carbohydrate and energy metabolism in parasitic helminths -- Ch. 15. Neurotransmitters -- Sect. IV. Medical Applications -- Ch. 16. Drug resistance in parasites -- Ch. 17. Medical implications of molecular parasitology.
  • Molecular medicine 2005, ScienceDirect
    History of molecular medicine -- DNA, RNA, genes and chromosomes -- Mendelian genetic traits -- Complex genetic traits -- Genomics, proteomics, and bioinformatics -- Genetic and cellular therapies -- Reproduction and development -- Infectious diseases -- Forensic medicine and science -- Ethical, legal, and social issues.
  • Molecular medicine 2005, MyiLibrary
    History of molecular medicine -- DNA, RNA, genes and chromosomes -- Mendelian genetic traits -- Complex genetic traits -- Genomics, proteomics, and bioinformatics -- Genetic and cellular therapies -- Reproduction and development -- Infectious diseases -- Forensic medicine and science -- Ethical, legal, and social issues.
  • Molecular medicine. 4th ed. 2012, ScienceDirect
  • Genetic analysis of bacterial pathogenesis -- Genetic exchance in bacteria and the modular stucture of mobile DNA elements -- Genomics and the use of genomic tools to study pathogenic bacteria -- Pathogenicity islands and bacterial virulence -- Capsules -- Bacterial cell walls -- Mechanisms of bacterial adhesion and consequences of attachment -- Bacterial invasion into non-phagocytic cells -- Bacterial protein secretion mechanisms -- Toxins as host cell modulators -- Quorum sensing: coordinating group behavior through intercellular signals -- The role of sigma factors in regulating bacterial stress responses and pathogenesis -- Two-component regulatory systems -- Oxidative stress systems in bacteria: four model organisms -- Bacterial biowarfare agents.
  • Basics of molecular biology -- Molecular pathology methods -- Genetic counseling -- Pedigree analysis and risk assessment -- Bayesian analysis -- Developmental disabilities -- Neuromuscular diseases -- Molecular genetic testing for metabolic disorders -- Fibroblast growth factor receptor-related skeletal disorders -- Cystic fibrosis -- Deafness -- Coagulation disorders -- Hematologic disorders : hemochromatosis, hemoglobinopathies, and Rh incompatibility --Cardiovascular disease -- Neurodegenerative disorders -- Skin and connective tissue disorders -- Inherited breast cancer -- Familial adenomatous polyposis and Turcot and Peutz-Jeghers syndromes -- Hereditary nonpolyposis colorectal cancer -- Multiple endocrine neoplasia syndromes -- The neurofibromatoses -- TP53 mutation and Li-Fraumeni syndrome -- von Hippel-Lindau disease -- Breast cancer -- Urothelial carcinoma -- Sarcomas -- Gliomas --Molecular detection of occult tumor cells -- Microarray studies (Beyond histology) -- Acute myeloid leukemia -- Acute lymphoblastic leukemia -- B-cell lymphomas -- T-cell lymphomas -- Lymphoproliferations of immunodeficiency -- Myeloproliferative disorders and myelodysplastic syndromes -- Human immunodeficiency virus type 1 -- Hepatitis B and C viruses -- Viral infections in transplant patients -- Viral infections of the central nervous system --Sexually transmitted diseases -- Respiratory pathogens -- Bacterial pathogens -- Mycobacterial infections -- Forensic DNA typing -- Parentage and relationship testing -- Assessment of chimerism in the setting of allogenic hematopoietic cell transplantation -- Specimen identification through DNA analysis -- Molecular HLA typing -- Molecular pathology laboratory management -- From research to clinical practice.
  • Molecular pharmacognosy 2013, Springer
    "This book reviews the latest developments in pharmacognosy, introduces a series of new views and insights, presents the hotspots and focus of the field of study on molecular pharmacognosy, and predicts a new direction of study on the resource science of TCM. Furthermore, the book also provides an open communications platform for the development of molecular pharmacognosy."--Publisher.
  • The application of modern molecular genetic and biologic techniques to infectious disease epidemiology dramatically improves measurement of disease and putative risk factors increasing our ability to detect and track outbreaks, identify risk factors and detect new infectious agents. However, integration of these techniques into epidemiologic studies also poses new challenges in the design, conduct, and analysis. We examine these opportunities and methodologic challenges giving specific examples. The book will be written for the reader with limited understanding of genetics, biology and epidemiology. *Presents the key points of consideration when integrating molecular biology and epidemiology *Discusses how using molecular tools in epidemiologic research affects program design and conduct *Considers the ethical concerns that arise in molecular epidemiologic studies *Provides a context for understanding and interpreting scientific literature as a foundation for subsequent practical experience in the laboratory and in the field.
  • Molecular toxicology 2004, CRCnetBASE
  • Part 1.General consideration on microorganism typing methods --Molecular Epidemiology /Amy E. Seitz and D. Rebecca Prevots --Part 2.Gastrointestinal Pathogens --Enterococcus /Lúcia Martins Teixeira and Vânia Lúcia Carreira Merquior --Listeria monocytogenes /Todd J. Ward --Enterobacteriaceae /Steven L. Foley, Aaron M. Lynne and Rajesh Nayak --Molecular Typing of Vibrio cholerae: Imprints in the Epidemiology of Cholera /T. Ramamurthy, A. K. Mukhopadhyay, R. K. Nandy and G. Balakrish Nair --Molecular Typing of Clostridium difficile /Andrej Weintraub and Carl Erik Nord --Oral and Intestinal Bacteroidetes /Marina C. Claros and Georg Conrads --Part 3.Oral and Respiratory Pathogens --Streptococci /Lesley McGee and Bernard Beall --Molecular Typing of Streptococcus mutans /Kazuhiko Nakano, Ichiro Nakagawa, Satu Alaluusua and Takashi Ooshima --Genotyping of Periodontal Anaerobic Bacteria in Relationship to Pathogenesis /Masae Kuboniwa and Atsuo Amano --Molecular Typing of Nontuberculous Mycobacteria /Jakko van Ingen and Dick van Soolingen --Molecular Typing of Neisseria meningitidis /Muhamed-Kheir Taha and Ala-Eddine Deghmane --Molecular Typing in Bacterial Infections Haemophilus spp. /Marina Cerquetti --Moraxella /Nevada M. Pingault and Thomas V. Riley --Legionella pneumophila Typing /Christophe Ginevra --Mycoplasma and Ureaplasma /Ken B. Waites, Li Xiao, Vanya Paralanov, Rose M. Viscardi and John I. Glass --Corynebacterium diphtheriae /Igor Mokrousov --Burkholderia /Pavel Drevinek and Eshwar Mahenthiralingam --Part 4.Urogenital Pathogens --Treponema /Allan Pillay --Chlamydiaceae /Troy Skwor and Deborah Dean --Part 5.Vector borne Pathogens --Borreliae /Dionysios Liveris, Klára Hanincová and Ira Schwartz --Erysipelothrix /Yumiko Imada --Part 6.Pathogens causing Healthcare-Associated Infection --Staphylococci /Jodi A. Lindsay --Molecular Typing Methods for the Genus Pseudomonas /Balázs Libisch --Part 7.Emerging and Reemerging Pathogens --Acinetobacter baumannii /Lenie Dijkshoorn --Molecular Typing of Coxiella burnetii: A Review of Available Methods with Major Focus on PCR-Based Techniques /V. Boldis, E. Spitalska and R. Toman.
  • "Written for chemists, physicists, molecular biologists, and students in related fields, this reference covers information presently available on the specific properties of metallic nanoparticles, and compares their properties with those related to nanoobjects formed by biological molecules. It also discloses details of formation and physic-chemical peculiarities of the DNA nanostructures and DNA-based nanoconstructions. Timely in publication, the reference contains more DNA physics and molecular biology than other published titles. Authors discuss how nucleic acid molecules and their complexes with chemical and biologically active compounds are of great interest in the development of various nanoscale systems and devices of practical importance"--Provided by publisher.
  • Neurofibromatosis type 1 2012, Springer
    Neurofibromatosis type 1 (NF1), caused by mutational inactivation of the NF1 tumour suppressor gene, is one of the most common dominantly inherited human disorders, affecting 1 in 3000 individuals worldwide. This book presents in concise fashion, but as comprehensively as possible, our current state of knowledge on the molecular genetics, molecular biology and cellular biology of this tumour predisposition syndrome. Written by internationally recognized experts in the field, the 44 chapters that constitute this edited volume provide the reader with a broad overview of the clinical features of the disease, the structure and expression of the NF1 gene, its germ line and somatic mutational spectra and genotype-phenotype relationships, the structure and function of its protein product (neurofibromin), NF1 modifying loci, the molecular pathology of NF1-associated tumours, animal models of the disease, psycho-social aspects and future prospects for therapeutic treatment.Neurofibromatosis Type 1: Molecular and Cellular Biology will be of great value to medical geneticists, molecular and cellular biologists, oncologists, dermatologists, neurologists, genetic counsellors and general practitioners alike.
  • Methods and tools in molecular epidemiology -- Molecular typing of bacterial pathogens: a tool for the epidemiological study and control of infectious diseases -- Contribution of population genetics -- Molecular epidemiology and evolutionary genetics of infectious diseases -- Population genetics and molecular epidemiology of infectious diseases -- Contribution of population and evolutionary epidemiology -- Modelling the dynamics of host-parasite interactions: basic principles -- Evolution of virulence: intuitions and models -- Case studies -- Molecular epidemiology of tuberculosis -- Pneumocystis molecular phylogeny: a way to understand both pneumocystosis natural histry and host taxonomy -- Hantavirus genetic diversity -- New integrations -- Nasal carriage of methicillin-resistant coagulase-negative staphylocococci: a reservoir of mecA gene for Staphylococcus aureus -- Molecular knowledge of mechanisms of helminth resistance: importance for diagnostic and epidemiology -- Molecular epidemiology of disease resistance genes with perspectives for researches on biological invasions and hybrid zones -- How does biodiversity influence the ecology of infectious disease? -- Epidemiological interaction at the wildlife/livestock/human interface: can we anticipate emerging infectious diseases in their hotspots? A framework for understanding emerging diseases processes in their hot spots.
  • Nitric oxide 2011, Springer Protocols
    Nitric oxide physiology and pathology / David G. Hirst and Tracy Robson -- Ionizing radiation-induced DNA strand breaks and [gamma]-H2AX foci in cells exposed to nitric oxide / Kai Rothkamm and Susanne Burdak-Rothkamm -- Determination of S-nitrosothiols in biological fluids by chemiluminescence / Enika Nagababu and Joseph M. Rifkind -- Measurement of nitrite in blood samples using the ferricyanide-based hemoglobin oxidation assay / Barbora Piknova and Alan N. Schechter -- Selective fluorescent activation for bioimaging the expression of nitric oxide in cellular and in vivo systems / Junfeng Zhang and Hao Hong -- Real-time measurement of murine hippocampus NO levels in response to cerebral ischemia/reperfusion / Xiaoxiang Zheng, Kezhou Liu, and Yong Yang -- Detection of low levels of nitric oxide using an electrochemical sensor / Yong Chool Boo ... [et al.] -- Determination of the scavenging capacity against reactive nitrogen species by automatic flow injection-based methodologies / Marcela A. Segundo ... [et al.] -- Aqueous measurement of nitric oxide using membrane inlet mass spectrometry / David N. Silverman and Chingkuang Tu -- Quantum cascade laser technology for the ultrasensitive detection of low-level nitric oxide / Angela Elia ... [et al.] -- Determination of in vivo nitric oxide levels in animal tissues using a novel spin trapping technology / Anatoly F. Vanin and Alexander A. Timoshin -- [Beta] cell protection by inhibition of iNOS through lentiviral vector-based strategies / Sean O. Hynes, Cillian McCabe, and Timothy O'Brien -- Characterization of nitric oxide delivery systems produced by various nanotechnologies / Chi H. Lee -- Nitric oxide releasing nanoparticle synthesis and characterization / George Han, Adam J. Friedman, and Joel M. Friedman -- NOS antagonism using viral vectors as an experimental strategy : implications for in vivo studies of cardiovascular control and peripheral neuropathies / Beihui Liu ... [et al.]
  • Nitric oxide protocols. 2nd ed. 2004, Springer Protocols
    Measurement of nitric oxide by reconversion of nitrate/nitrite to NO / Reinhard Berkels, Svenja Purol-Schnabel, and Renate Roesen -- High-resolution capillary electrophoresis of nitrite and nitrate in biological samples / Dmitri Y. Boudko -- Nitrite and nitrate measurements in human urine by capillary electrophoresis / Edward Morcos and N. Peter Wiklund -- In vivo nitric oxide measurements using a microaxial electrode / Yoshiichiro Kitamura ... [et al.] -- Measurement of exhaled nitric oxide / Peter A. Steerenberg and Jan G.C. van Amsterdam -- Nitric oxide imaging in neurons using confocal microscopy / Xiaoxiang Zheng ... [et al.] -- Measurement of nitric oxide synthase activity in vivo and in vitro by gas chromatography-mass spectrometry / Dimitrios Tsikas -- A nonradioactive assay for nitric oxide synthase activity in tissue extracts / Hazel Sutherland ... [et al.] -- Measurement of nitric oxide-related enzymes in the brain by in situ hybridization / Olivier Braissant -- Real-time polymerase chain reaction to quantify mRNA for endothelial nitric oxide synthase / Yi Chu and Frank M. Faraci --Dioxygen-dependent metabolism of nitric oxide / Paul R. Gardner, Anne M. Gardner, and Craig K. Hallstrom -- Proteomic method for identification of tyrosine-nitrated proteins / Kulwant S. Aulak ... [et al.] -- Immunohistochemical detection of S-nitrosylated proteins / Andrew J. Gow ... [et al.] -- Gene therapy techniques for the delivery of endothelial nitric oxide synthase to the corpora cavernosa for erectile dysfunction / Trinity J. Bivalacqua ... [et al.] -- Adenovirus-mediated nitric oxide synthase gene transfer into the nucleus tractus solitarius in conscious rats / Yoshitaka Hirooka and Koji Sakai -- Gene therapy in cancer via use of a retrovector having a tumor specificity and expressing inducible nitric oxide synthase / Masahide Kuroki -- Gene transfer of nitric oxide synthase via the use of adeno-associated virus vectors / Yoshikazu Maeda, Kazuyuki Shimada, and Uichi Ikeda -- Adenovirus-mediated nitric oxide synthase gene transfer / Kathleen G. Raman ... [et al.].
  • Normal mode analysis 2006, CRCnetBASE
  • Nuclear dynamics 2007, Springer
  • Nuclear organization and function 2010, Cold Spring Harb Lab Press
    Chromatin modifications and gene expressions -- Transcription and beyond -- DNA replication and genome integrity -- Reprogramming and differentiation -- Heterochromatin formation and gene silencing -- Nuclear bodies and RNA biology -- Chromosome structure and mitosis -- Chromatin structure and organization -- Nuclear periphery.
  • Oligonucleotide synthesis 2004, Springer Protocols
    Synthesis of DNA using a new two-step cycle / Douglas J. Dellinger ... [et al.] -- RNA synthesis using 2'-O-(tert-butyldimethylsilyl) protection / Brian S. Sproat -- RNA oligonucleotide synthesis via 5'-silyl-2'-orthoester chemistry / Stephanie A. Hartsel... [et al.] -- Dimethylthiarum disulfide: new sulfur transfer reagent in phosphorothioates oligonucleotide synthesis -- Zhiwei Wang, Quanlai Song, and Yogesh H. Sanghvi -- Assay for evaluating ribonuclease H-mediated degradation of RNA-antisense oligonucleotide duplexes / Annie Galarneau ... [et al.] -- Di- and oligonucleotide synthesis using H-phosphonate chemistry / Jacek Stawinski and Roger Strömberg -- Solid-phase synthesis of circular oligonucleotides / Enrique Pedroso ... [et al.] -- Locked nucleic acid synthesis / Henrik M. Pfundheller ... [et al.] -- Synthesis of DNA mimics representing HypNA-pPNA hetero-oligomers / Vladimir A. Efimov and Oksana G. Chakhmakhcheva -- Base-modified oligonucleotides with increased duplex stability: pyrazolo[3,4-d] pyrimidines replacing purines / Frank Seela ... [et al.] --Introduction of hypermodified nucleotides in RNA / Darrell R. Davis and Ashok C. Bajji -- Chemical methods for peptide-oligonucleotide conjugate synthesis / Dmitry A. Stetsenko and Michael J. Gait -- Biotin labeled oligonucleotides with extraordinarily long tethering arms / A. Michael Morocho ... [et al.] -- Universal labeling chemistry for nucleic acid detection on DNA chips / Ali Laayoun ... [et al.] -- Postsynthetic functionalization of triple helix-forming oligonucleotides / Alexandre S. Boutorine and Jian-Sheng Sun -- Fluorescence-based on-line detection as an analytical tool in RNA electrophoresis / Ute Scheffer and Michael Göbel -- Design and optimization of molecular beacon real-time polymerase chain reaction assays / Jacqueline A. M. Vet and Salvatore A. E. Marras -- High-thoughput production of optimized primers (fimers) for whole-genome direct sequencing / Nikolai Polushin ... [et al.] -- Nonenzymatic template directed RNA synthesis / Marcus Hey and Michael Göbel -- DNAse I footprinting of small molecule binding sites on DNA / Christian Bailly ... [et al.] --Gene targeting using peptide nucleic acid / Peter E. Nielsen -- Nucleic acid library construction using synthetic DNA constructs / Hani S. Zaher and Peter J. Unrau -- In vitro selection from combinatorial nucleic acid libraries / Andres Jäschke -- In vitro selection procedures for identifying DNA and RNA aptamers targeted to nucleic acids and proteins / Eric Dausse ... [et al.] -- Short double-stranded ribonucleic acid as inhibitor of gene expression by the interference mechanism / Jean-Rémi Bertrand, Andrei Maksimenko, and Claude Malvy.
  • Ch. 1. Molecular biology of Omega-3 chains as structural lipids : many central questions remain unanswered -- Ch. 2. Darwinian selection of the fittest membrane lipids : from archaeal isoprenoids to DHA-enriched rhodopsin disks -- Ch. 3. Coevolution of DHA membranes and their proteins -- Ch. 4. Convergent evolution of DHA/EPA biosynthetic pathways -- Ch. 5. Membrane evolution in a marine bacterium : capitalizing on DHA for energy conservation in seawater -- Ch. 6. Evolution of DHA membranes in human neutrons -- Ch. 7. DHA/EPA chains as powerful membrane antifreeze -- Ch. 8. DHA as a mediocre permeability barrier against cations : water wire theory -- Ch. 9. DHA/EPA membranes as targets of oxidative damage -- Ch. 10. Bacteria : environmental modulation of membrane lipids for bioenergetic gain -- Ch. 11. Chloroplasts : harnessing DHA/EPA for harvesting light in the sea -- Ch. 12. Mitochondria : DHA-cardiolipin boosts energy output -- Ch. 13. Sperm : essential roles of DHA lead to development of a mechanical stress hypothesis -- Ch. 14. DHA/EPA mutualism between bacteria and marine animals -- Ch. 15. Membrane adaptations for an oily environment : lessons from a petroleum-degrading bacterium -- Ch. 16. Lessons from yeast : phospholipid conformations are important in winemaking -- Ch. 17. DHA principle applied to global warming -- Ch. 18. DHA principle applied to molecular farming -- Ch. 19. DHA/unsaturation theory of aging -- Ch. 20. DHA principle applied to neurodegenerative diseases -- Ch. 21. Dietary DHA in prevention of colon cancer : how a risk to the cell benefits the organism.
  • Organelle proteomics 2008, Springer Protocols
    Analysis of organelles by on-line two-dimensional liquid chromatography-tandem mass spectrometry / Edwin P. Romijn and John R. Yates III -- Purification and proteomic analysis of chloroplasts and their sub-organellar compartments / Daniel Salvi ... [et al.] -- Proteomic analysis of the stacked golgi complex / Mark S. Lowenthal, Kathryn E. Howell, and Christine C. Wu -- Purification of Saccharomyces cerevisiae mitochondria by zone electrophoresis in a free flow device / Hans Zischka ... [et al.] -- Preparation of respiratory chain complexes from Saccharomyces cerevisiae wild-type and mutant mitochondria : activity measurement and subunit composition analysis / Claire Lemaire and Geneviève Dujardin -- Mitochondrial proteomics : analysis of a whole mitochondrial extract with two-dimensional electrophoresis / Thierry Rabilloud -- Purification and proteomic analysis of the mouse liver mitochondrial inner membrane / Sandrine Da Cruz and Jean-Claude Martinou -- Subcellular fractionation and proteomics of nuclear envelopes / Laurence Florens, Nadia Korfali, and Eric C. Schirmer -- Purification and proteomic analysis of a nuclear-insoluble protein fraction / Tsuneyoshi Horigome, Kazuhiro Furukawa, and Kohei Ishii -- Preparation methods of human metaphase chromosomes for their proteome analysis / Kiichi Fukui, Hideaki Takata, and Susumu Uchiyama -- Purification and proteomic analysis of plant plasma membranes / Erik Alexandersson ... [et al.] -- Protocol to enrich and analyze plasma membrane proteins from frozen tissues / Jacek R. Wiśniewski -- Proteomic characterization of membrane protein topology / Adele R. Blackler and Christine C. Wu -- Free flow isoelectric focusing : a method for the separation of both hydrophilic and hydrophobic proteins of rat liver peroxisomes / Markus Islinger and Gerhard Weber -- Use of gas-phase fractionation to increase protein identifications : application to the peroxisome / Jacob Kennedy and Eugene C. Yi -- Purification and proteomic analysis of lysosomal integral membrane proteins / Huiwen Zhang ... [et al.] -- Affinity purification of soluble lysosomal proteins for mass spectrometric identification / Sylvie Kieffer-Jaquinod ... [et al.] -- Purification and proteomic analysis of synaptic vesicles / Holly D. Cox and Charles M. Thompson -- Purification and proteomics analysis of pancreatic zymogen granule membranes / Xuequn Chen and Philip C. Andrews -- Isolation and proteomic analysis of chlamydomonas centrioles / Lani C. Keller and Wallace F. Marshall -- Purification and proteomic analysis of 20S proteasomes from human cells / Marie-Pierre Bousquet-Dubouch ... [et al.] -- Characterization of E. coli ribosomal particles : combined analysis of whole proteins by mass spectrometry and of proteolytic digests by liquid chromatography-tandem mass spectrometry / Isabelle Iost ... [et al.] -- Assessment of organelle purity using antibodies and specific assays : the example of the chloroplast envelope / Daniel Salvi ... [et al.] -- Identifying bona fide components of an organelle by isotope-coded labeling of subcellular fractions : an example in peroxisomes / Marcello Marelli, Alexey I. Nesvizhskii, and John D. Aitchison -- Determination of genuine residents of plant endomembrane organelles using isotope tagging and multivariate statistics / Kathryn S. Lilley and Tom P.J. Dunkley -- Quantitative proteomic analysis to profile dynamic changes in the spatial distribution of cellular proteins / Wei Yan, Daehee Hwang, and Ruedi Aebersold -- Use of transcriptomic data to support organelle proteomic analysis / Wallace F. Marshall.
  • A brief overview of molecular genetics -- An overview of information theory -- More on molecular genetics -- More on information theory -- An outline of error-correcting codes -- DNA is an ephemeral memory -- A toy living world -- Subsidiary hypothesis, nested system -- Soft codes -- Biological reality conforms to the hypotheses -- Identification of genomic codes.
  • p53 2011, Springer
    TP53 mutations in human cancers : selection versus mutagenesis / Magali Olivier, Audrey Petitjean, Claude Caron de Fromentel, and Pierre Hainaut -- Lessons on p53 from mouse models / Dadi Jiang and Laura D. Attardi -- TP63, TP73 : the guardian's elder brothers / Stephanie Courtois, Pierre Hainaut and Claude Caron de Fromentel -- The regulation of p53 protein function by phosphorylation / Nicola J. Maclaine and Theodore Hupp -- The p53-Mdm2 loop : a critical juncture of stress response / Yaara Levav-Cohen, Zehavit Goldberg, Osnat Alsheich Bartok, Valentina Zuckerman, Sue Haupt and Ygal Haupt -- Cooperation between MDM2 and MDMX in the regulation of p53 / Jeremy Blaydes -- Regulation and function of the original p53-inducible p21 gene / Jennifer A. Fraser -- p53 localization / Carl G. Maki -- Modes of p53 interactions with DNA in the chromatin context / Vladana Vukojevic, Tatiana Yakovleva, and Georgy Bakalkin -- p53's dilemma in transcription : analysis by microarrays / Karuppiah Kannan, Gideon Rechavi and David Givol -- Tumor viruses and p53 / Nobuo Horikoshi -- p53 and immunity / Vikram Narayan, Sarah E. Meek and Kathryn L. Ball.
  • PCR cloning protocols. 2nd ed. 2002, Springer Protocols
  • PCR mutation detection protocols 2002, Springer Protocols
  • Peptide research protocols 2002, Springer Protocols
  • Phosphodiesterase methods and protocols 2005, Springer Protocols
    Purification of PDE6 isozymes from mammalian retina / Dana C. Pentia ... [et al.] -- Cyclic guanosine 5'-monophosphate binding to the regulatory GAF domains of photoreceptor phosphodiesterase / Rick H. Cote -- Renaturation of the catalytic domain of PDE4A expressed in escherichia coli as inclusion bodies / Wito Richter, Thomas Hermsdorf, and Dietrich Dettmer -- Determining the subunit structure of phosphodiesterases using gel filtration and sucrose density gradient centrifugation / Wito Richter -- Crystallization of cyclic nucleotide phosphodiesterases / Hengming Ke, Qing Huai, and Robert X. Xu -- Generation of PDE4 knockout mice by gene targeting / S.-L. Catherine Jin, Anne M. Latour, and Marco Conti -- Immunoprecipitating PDE2 phosphorylated and inactivated by an associated protein kinase / J. Kelley Bentley -- Investigation of extracellular signal-regulated kinase 2 mitogen-actived protein kinase phosphorylation and regulation of activity of PDE4 cyclic adenosine monophosphate-specific phosphodiesterases / Elaine V. Hills, Miles D. Houslay, and George S. Baillie --Radiolabeled ligand binding to the catalytic or allosteric sites of PDE5 and PDE11 / James L. Weeks ... [et al.] -- Analysis of dimerization determinants of the PDE6 catalytic subunits / Khakim G. Muradov, Kimberley K. Boyd, and Nikolai O. Artemyev -- Interaction between catalytic and inhibitory subunits of PDE6 / Nikolai O. Artemyev -- Purification, reconstitution on lipid vesciles and assays of PDE6 and its activator G protein, transducin -- Theodore G. Wensel, Feng He, and Justine A. Malinski.Study of cyclic adenosine monophosphate microdomains in cells / Marco Mongillo ... [et al.] -- High-resolution measurements of cyclic adenosine monophosphate signals in 3D microdomains / Jeffrey W. Karpen and Thomas C. Rich -- Cygnets : in vivo characterization of novel cGMP indicators and in vivo imaging of intracellular cGMP / Akira Honda ... [et al.] -- High-throughput screening of phosphodiesterase activity in living cells / Thomas C. Rich and Jeffrey W. Karpen -- Assessment of phosphodiesterase isozyme contribution in cell and tissue extracts / Thèrése Keravis, Rima Thaseldar-Roumié, and Claire Lugnier -- Localization of the cyclic guanosine 3', 5'-monophosphate-hydrolysing phosphodiesterase type 9 in rat brain by nonradioactive in situ hybridization / Wilma C.G. Van Staveren and Marjanne Markerink-Van Ittersum -- Determination of Ca2+/calmodulin-stimulated phosphodiesterase activity in intact cells / Chen Yan -- Adenovirus-mediated overexpression of murine cyclic nucleotide phosphodiesterase 3B / Faiyaz Ahmad ... [et al.] -- Identification of promoter elements in the 5'-flanking region of the murine cyclic nucleotide phosphodiesterase 3B gene / Hanguan Liu ... [et al.] --
  • Photosynthesis research protocols 2004, Springer Protocols
    Assay of photoinhibition of photosystem II and protease activity / Yasusi Yamamoto ... [et al.] -- Thermoluminescence: a technique for probing photosystem II / Prafullachandra V. Sane -- Detection of free radicals and reactive oxygen species / Éva Hideg -- Stabilization of photosynthetic materials / Régis Rouillon, Pierre Euzet, and Robert Carpentier -- Determination of phosphoproteins in higher plant thylakoids / Eva-Mari Aro, Anne Rokka, and Alexander V. Vener -- Identifying photoprotection mutants in Arabidopsis thaliana / Jan Bart Rossel, Abby Cuttriss, and Barry J. Pogson -- A simple method for chloroplast transformation in Chlamydomonas reinhardtii / Velupillai M. Ramesh, Scott E. Bingham, and Andrew N. Webber -- The Construction of gene knockouts in the Cyanobacterium Synechocystis sp. PCC 6803 / Julian J. Eaton-Rye -- Gene inactivation in the cyanobacterium Synechococcus sp. PCC 7002 and the green sulfur bacterium Chlorobium tepidum using in vitro-made DNA constructs and natural transformation / Niels-Ulrik Frigaard, Yumiko Sakuragi, and Donald A. Bryant.Fractionation of thylakoid membranes into grana and stroma thylakoids / Juan Cuello and María José Quiles -- Isolation of photosystem I particles from spinach / Tetsuo Hiyama -- Rapid isolation and purification of photosystem I chlorophyll-binding protein from Chlamydomonas reinhardtii / Velupillai M. Ramesh and Andrew N. Webber -- Isolation of photosystem II-enriched membranes and the oxygen-evolving complex subunit proteins from higher plants / Yasusi Yamamoto, Shinsuke Sakuma, and Jian-Ren Shen -- Isolation of functional photosystem II core particles from the Cyanobacterium synechocystis sp. PCC 6803 / Dmitrii Vavilin -- Isolation of photosystem I reaction center preparation from spinach / Tetsuo Hiyama -- Isolation of photosystem II reaction center complexes from plants -- Michael Seibert, Inmaculada Yruela, and Rafael Picorel -- Isolation of photosystem I reaction center subunit polypeptides from spinach / Tetsuo Hiyama -- Purification and crystallization of the cytochrome b6f complex in oxygenic photosynthesis / Huamin Zhang and William A. Cramer -- Purification of plastocyanin and cytochrome C6 from plants, green algae, and cyanobacteria / José A. Navarro, Manuel Hervás, and Miguel A. De la Rosa --Preparation of native and recombinant light-harvesting chlorophyll-a/b complex / Wolfgang Rühle and Harald Paulsen -- Isolation and characterization of lamellar aggregates of LHCII and LHCII-lipid macro-assemblies with light-inducible structural transitions / Ilian Simidjiev, Zsuzsanna Vácrkonyi, and Gyozo Garab -- Separation, purification and characterization of polypeptide composition of subcomplexes of the main light-harvesting chlorophyll a/b-protein complex of photosystem II / Grzegorz Jackowski -- Isolation of CP43 and CP47 photosystem II proximal antenna complexes from plants / Rafael Picorel, Miguel Alfonso, and Michael Seibert -- The determination and quantification of photosynthetic pigments by reverse phase high-performance liquid chromatography, thin-layer chromatography, and spectroscopy / Tessa Pocock, Marianna Król, and Norman P. A. Huner -- Isolation and identification of chloroplast lipids / Norihiro Sato and Mikio Tsuzuki -- DNA adducts with chlorophyll and chlorophyllin as antimutagenic agents: synthesis, stability, and structural features / Heidar-Ali Tajmir-Riahi, Jean-Francois Neault, and Stravoula Diamantoglou -- Incorporation and analysis of LHCII in model systems / Wieslaw I. Gruszecki -- Photosystem II reconstitution into proteoliposomes: structure-function characterization / Mário Fragata -- Extraction of the functional manganese and calcium from photosystem II / Joel Freeman, Garth Hendry, and Tom Wydrzynski --
  • Phylogenomics 2008, Springer Protocols
    From gene-scale to genome-scale phylogenetics : the data flood in, but the challenges remain / Antonis Rokas and Stylianos Chatzimanolis -- Phylogenomic analysis of chromosome sorting and painting / Roscoe Stanyon and Gary Stone -- FISH for mapping single copy genes / Terje Raudsepp and Bhanu P. Chowdhary -- Construction of radiation hybrid panels / John E. Page and William J. Murphy -- Survey sequencing and radiation hybrid mapping to construct comparative maps / Christophe Hitte ... [et al.] -- Construction of high-resolution comparative maps in mammals using BAC-end sequences / Denis M. Larkin and Harris A. Lewin -- Amniote phylogenomics : testing evolutionary hypotheses with BAC library scanning and targeted clone analysis of large-scale sequences from reptiles / Andrew M. Shedlock, Daniel E. Janes, and Scott V. Edwards -- Comparative physical mapping : universal overgo hybridization probe design and BAC library hybridization / James W. Thomas -- Phylogenomic resources at the UCSC Genome Browser / Kate Rosenbloom ... [et al.] -- Computational tools for the analysis of rearrangements in mammalian genomes / Glenn Tesler and Guillaume Bourque -- Computational reconstruction of ancestral DNA sequences / Mathieu Blanchette ... [et al.] -- Sequencing and phylogenomic analysis of whole mitochondrial genomes of animals / Rafael Zardoya and Mónica Suárez -- Retroposons : genetic footrpints on the evolutionary paths of life / Hidenori Nishihara and Norihiro Okada -- LINE-1 elements : analysis by FISH and nucleotide sequences / Paul D. Waters ... [et al.] -- Identification of cryptic sex chromosomes and isolation of X- and Y-borne genes / Paul D. Waters ... [et al.]
  • pt. 1. Principles of biophysical inquiry -- pt. 2. Foundations -- pt. 3. Building a model of biomolecular structure -- pt. 4. Function and action biological state space -- pt. 5. Methods for the measuring structure and function -- pt. 6. Physical constants.
  • Part I. Overview of Chloride Transporters and Channels -- Part II. Current Methods for Studying Chloride Regulation -- Part III. From Cloning to Structure, Function and Regulation of Chloride Transporters and Channels -- Part IV. Cation-Chloride Cotransporters in Neural Function and Dysfunction -- Part V. Cation-Chloride Cotransport in Choroid Plexus and Blood-Brain Barrier.
  • Section I. Introduction of cancer biology and cancer genetics -- Section II. Molecular techniques -- Section III. Molecular tests and cancer management -- Section IV. Molecular diagnostics of common malignancies -- Section V. Molecular basis of cancer therapeutics -- Section VI. Personalized medicine and targeted therapy of cancer -- Section VII. Future of molecular diagnostics and personalized cancer medicine.
  • Prion protein protocols 2008, Springer Protocols
    Cell culture models to unravel prion protein function and aberrancies in prion diseases / Katarina Bedecs -- Investigation of PrPc metabolism and function in live cells : methods for studying individual cells and cell populations / Cathryn L. Haigh and David R. Brown -- Immunodetection of PrPsc using western and slot blotting techniques / Hanny Gyllberg and Kajsa Löfgren -- Assaying prions in cell culture : the standard scrapie cell assay (SSCA) and the scrapie cell assay in end point format (SCEPA) / Sukhvir P. Mahal ... [et al.] -- Generation of cell lines propagating infectious prions and the isolation and characterization of cell-derived exosomes / Laura J. Vella and Andrew F. Hill -- Neurotoxicity of prion peptides on cultured cerebellar neurons / Giuseppe D. Ciccotosto, Roberto Cappai, and Anthony R. White -- Understanding the nature of prion diseases using cell-free assays / Victoria A. Lawson -- Methods for conversion of prion protein into amyloid fibrils / Leonid Breydo, Natallia Makarava, and Ilia V. Baskakov -- Amplification of purified prions in vitro / Surachai Supattapone, Nathan R. Deleault, and Judy R. Rees -- Expression and purification of full-length recombinant PrP of high purity / Natallia Makarava and Ilia V. Baskakov -- Analysis of PrP conformation using circular dichroism / Sen Han and Andrew F. Hill -- Effect of copper on the de novo generation of prion protein expressed in Pichia pastoris / Carina Treiber -- Biophysical investigations of the prion protein using electron paramagnetic resonance / Simon C. Drew and Kevin J. Barnham -- Molecular diagnosis of human prion disease / Jonathan D.F. Wadsworth ... [et al.] -- Analysis of endogenous PrPc processing in neuronal and non-neuronal cell lines / Victoria Lewis and Steven J. Collins -- Molecular typing of PrPres in human sporadic CJD brain tissue / Victoria Lewis ... [et al.] -- Transgenic mouse models of prion diseases / Glenn C. Telling -- Quantitiative bioassay of surface-bound prion infectivity / Victoria A. Lawson.
  • Introduction -- Type I Toxin - Antitoxin Systems: Hok/Sok and Fst -- Novel Type I Toxin - Antitoxin Systems -- Type II TA Loci: The Ccdab and Parde Families -- Type II TA Loci: The Relbe Family -- Type II TA Loci: The Unusual Mqsra Locus -- Type II TA Loci: The Mazef Family -- Type II TA Loci: Vapbc and Other TA Loci In Mycobacteria -- Type II TA Loci: Phd Doc Family -- Type II TA Loci: The Fic Family -- Type II TA Loci, Hipab And Persisters -- Type II TA Loci: Zeta/Pezt Family -- Type II Loci: Phylogeny -- Type III TA Loci -- TA Loci Encoded By Plasmids -- TA Loci in Archaea -- TA Loci in Mycobacterium Tuberculosis -- TA Loci in Streptococcus Pneumoniae -- Biotechnological and Medical Exploitations Of TA Genes and Their Components.
  • Protein chromatography 2011, Springer Protocols
    A digest of protein purification -- Gel-filtration chromatography -- Immunoaffinity chromatography -- Avoiding proteolysis during protein chromatography -- Scale-up of protein purification : Downstream processing issues -- Phage display : A powerful technology for the generation of high specificity affinity reagents from alternative immune sources -- Engineering protein stability -- Microfluidics in protein chromatography -- Tagging recombinant proteins to enhance solubility and aid purification -- Storage and lyophilisation of pure proteins -- Differential precipitation and solubilization of proteins -- Ion-exchange chromatography : Basic principles and application to the partial purification of soluble mammalian prolyl oligopeptidase -- Protein quantitation and analysis of purity -- Purification of proteins fused to glutathione S-transferase -- Purification of proteins fused to maltose-binding protein -- Purification of proteins from baculovirus-infected insect cells -- Purification of poly-histidine-tagged proteins -- Immobilized metal affinity chromatography/reversed-phase enrichment of phosphopeptides and analysis by cid/etd tandem mass spectrometry -- Tag removal by site-specific cleavage of recombinant fusion proteins -- Purification of antibodies using affinity chromatography -- Optimized generation of high-affinity, high-specificity single-chain Fv antibodies from multiantigen immunized chickens -- Measuring protein-protein interactions using biacore -- Ultra-performance liquid chromatography-mass spectrometry of proteins -- Hydrophobic interaction chromatography -- Fast protein liquid chromatography -- Shotgun proteomics : A qualitative approach applying isoelectric focusing on immobilized pH gradient and LC-MS/MS -- Shotgun proteomics : A relative quantitative approach using off-gel electrophoresis and LC-MS/MS -- Clinical proteomics : Liquid chromatography-mass spectrometry purification systems -- Strategies for the purification of membrane proteins -- A multi-step chromatographic strategy to purify three fungal endo-[beta]-glucanases.
  • "This book discusses how biological molecules exert their function and regulate biological processes, with a clear focus on how conformational dynamics of proteins are critical in this respect. In the last decade, the advancements in computational biology, nuclear magnetic resonance including paramagnetic relaxation enhancement, and fluorescence-based ensemble/single-molecule techniques have shown that biological molecules (proteins, DNAs and RNAs) fluctuate under equilibrium conditions. The conformational and energetic spaces that these fluctuations explore likely contain active conformations that are critical for their function. More interestingly, these fluctuations can respond actively to external cues, which introduces layers of tight regulation on the biological processes that they dictate. A growing number of studies have suggested that conformational dynamics of proteins govern their role in regulating biological functions, examples of this regulation can be found in signal transduction, molecular recognition, apoptosis, protein / ion / other molecules translocation and gene expression"--Publisher's description.
  • Protein design 2006, Springer Protocols
    Design of structural elementary motifs. Structure and stability of the [alpha]-helix: lessons for design / Neil Errington, Teuku Iqbalsyah, and Andrew J. Doig. De novo design of monomeric [beta]-hairpin and [beta]-sheet peptides / David Pantoja-Uceda, Clara M. Santiveri, and M. Angeles Jiménez. De novo proteins from binary-patterned combinatorial libraries / Luke H. Bradley, Peter P. Thumfort, and Michael H. Hecht. Non-protein amino acids in the design of secondary structure scaffolds / Radhakrishnan Mahalakshmi and Padmanabhan Balaram. Design and synthesis of [beta]-peptides with biological activity / Marc J. Koyack and Richard P. Cheng -- Design of entire proteins and protein complexes. Design of miniproteins by the transfer of active sites onto small-size scaffolds / Franc̦ois Stricher, Loïc Martin, and Claudio Vita. Consensus design as a tool for engineering repeat proteins / Tommi Kajander, Aitziber L. Cortajarena, and Lynne Regan. Multiple sequence alignment as a guideline for protein engineering strategies / Alan R. Davidson. Sequence search methods and scoring functions for the design of protein structures / Hocine Madaoui, Emmanuelle Becker, and Raphael Guerois. Prediction of protein-protein interaction based on structure / Gregorio Fernandez-Ballester and Luis Serrano. Electrostatic design of protein-protein association rates / Gideon Schreiber, Yossi Shaul, and Kay E. Gottschalk -- Design of amyloidogenic polypeptides and amyloid inhibitors. Peptide model systems for amyloid fiber formation: design strategies and validation methods / Alexandra Esteras-Chopo, María Teresa Pastor, and Manuela López de la Paz. Protein misfolding disorders and rational design of antimisfolding agents / Lisbell D. Estrada, June Yowtak, and Claudio Soto.
  • Protein engineering protocols 2006, Springer Protocols
  • Protein folding protocols 2006, Springer Protocols
  • Protein misfolding and celluar stress : an overview / Niels Gregersen and Peter Bross -- Protein aggregation diseases : toxicity of soluble prefibrillar aggregates and their clinical significance / Massimo Stefani -- Consequences of stress in the secretary pathway : the ER stress response and its role in the metabolic syndrome / Martin Schröder and Louise Sutcliffe -- What role does mitochondrial stress play in neurodegenerative diseases? / Alicia Mae Pickrell and Carlos Torres Moraes -- Autophagy in disease / Dalibor Mijaljica, Mark Prescott, and Rodney J. Devenish -- Mitophagy and mitoptosis in disease processes / Dalibor Mijaljica, Mark Prescott, and Rodney J. Devenish -- Cellular stress and protein misfolding during aging / Rajiv Vaid Basaiawmoit and Suresh I.S. Rattan -- Measuring consequences of protein misfolding and cellular stress using OMICS techniques / Peter Bross ... [et al.] -- Production of cells with targeted integration of gene variants of human ABC transporter for stable and regulated expression using the Flp recombinase system / Kanako Wakabayashi-Nakao ... [et al.] -- Stress response profile in human fribroblasts exposed to heat shock or oxidative stress / Christina Bak Pedersen and Niels Gregersen -- Examining ubiquitinated protein aggregates in tissue sections / Natalia A. Kaniuk and John H. Brumell -- Determination of proteasomal activities / Cristovao F. Lima and Suresh I.S. Rattan -- Measurement of autophagy in cells and tissues / Isei Tanida and Satoshi Waguri -- Transcription factor sequestration by polyglutamine proteins / Tomoyuki Yamanaka and Nobuyuki Nukina -- Biological membranes as protein aggregation matrices and targets of amyloid toxicity / Monica Bucciantini and Cristina Cecchi -- Measurement of mitochondrial ROS production / Anatoly A. Starkov -- In vivo detection of oxidized proteins : a practical approach to tissue-derived mitochondria / Francesca Maltecca and Giorgio Casari -- Measurement of oxidized/reduced glutathione ratio / Joshua B. Owen and D. Allan Butterfield -- Determination of altered mitochondria ultrastructure by electron microscopy / Shoichi Sasaki -- Assessing bad sub-cellular localization under conditions associated with prevention or promotion of mitochondrial permeability transition-dependent toxicity / Liana Cerioni and Orazio Cantoni -- A cellular viability assay to monitor drug toxicity / Jakob Hansen and Peter Bross -- Rescue of misfolded proteins and stabilization by small molecules / Raymond C. Stevens, javier Sancho, and Aurora Martinez.
  • Analysis of protein phosphatases / Shirish Shenolikar -- A brief introduction to the protein phosphatase families / Tomas Mustelin -- Small molecule inhibitors of Ser/thr protein phosphatases / Mark Swingle, Li Ni, and Richard E. Honkanen -- Synthesis and use of the protein phosphatase affinity matrices microcystin- and microcystin-biotin-sepharose / Greg Moorhead, Timothy A.J. Haystead, and Carol MacKintosh -- Utilizing protein phosphatase inhibitors to define PP2A as a regulator of ataxia-telangiectasia mutated (ATM) / Aaron A. Goodarzi ... [et al.] -- An automated, fluorescence-based method for continuous assay of PP2A activity / Adam M. Wegner ... [et al.] -- An in vivo assay to quantify stable protein phosphatase 2A (PP2A) heterotrimeric species / Matthew S. Gentry, Richard L. Hallberg, and David C. Pallas -- Mutagenesis and expression of the scaffolding Aa and Ab subunits of PP2A / Ralf Ruediger, Jin Zhou, and Gernot Walter -- Isolation and characterization of PP2A holoenzymes containing FLAG-tagged B subunits / Deanna G. Adams and Brian E. Wadzinski -- Purification of PP2A holoenzymes by sequential immunoprecipitation with anti-peptide antibodies / Gernot Walter, Jin Zhou, and Ralf Ruediger -- Purification of PP2Ac from bovine heart / Hue T. Tran ... [et al.] -- Visualization of intracellular PP1 targeting through transiently and stably expressed fluorescent protein fusions / Laura Trinkle-Mulcahy ... [et al.] -- Yeast two-hybrid screens to identify drosophila PP1-binding proteins / Daimark Bennett and Luke Alphey -- Identification of cellular protein phosphatase-1 regulators / David W. Roadcap, Matthew H. Brush, and Shirish Shenolikar --Assay for 3-way interaction of protein phosphatase-1 (Glc7) with regulatory subunits plus phosphatase inhibitor-2 / Masumi Eto and David L. Brautigan -- Phosphorylation of the protein phosphatase type 1 inhibitor protein, CPI-17, by protein kinase C / Michael P. Walsh ... [et al.] -- Purification of smooth muscle myosin phosphatase using a thiophosphorylated myosin light chain-affinity resin / Merideth Borman and Justin MacDonald -- Proteins interacting with saccharomyces cerevisiae type 1 protein phosphatase catalytic subunit identified by single-step affinity purification and mass spectrometry / Edmund P. Walsh ... [et al.] -- Expression of protein histidine phosphatase in Escherichia coli, purification, and determination of enzyme activity / Nicole Bäumer .. [et al.] -- The use of RNA interference to analyze protein phosphatase function in mammalian cells / Iain Fraser ... [et al.] -- Recognition of a PP2C interaction motif in several plant protein kinases / Niranjan Chakraborty, Ohta Masaru, and Jian-Kang Zhu -- The use of yeast genetic tools to define biological roles of novel protein phosphatases / Joaquín Ariño ... [et al.] -- Targeting of PP2C in budding yeast / Irene Ota and James Mapes -- Phosphatase targets in TOR signaling / Estela Jacinto -- Functional characterization of the small CTD phosphatases (SCPs) / Michele Yeo and Patrick S. Lin -- Genome-scale discovery and characterization of class-specific protein sequences / David Kerk -- Yeast substrate-trapping system for isolating substrates of protein tyrosine phosphatases / Masahide Fukada and Masaharu Noda.
  • An introduction to protein sequencing using tandem mass spectrometry --The primary structure of proteins and a historical overview of protein sequencing --Fundamental mass spectrometry --Collisionally induced dissociation of protonated peptide icons and the interpretation of product ion spectra --Basic polyacrylamide gel electrophoresis --The preparation of protein digests for mass spectrometric sequencing experiments --Mass spectrometric analysis of tryptic digests --Protein identification by database searching --Sequence analysis of novel proteins --The characterization of post-translationally modified proteins using tandem mass spectometry.
  • Protein structure prediction. 2nd ed. 2008, Springer Protocols
    A historical perspective of template-based protein structure prediction / Jun-tao Guo, Kyle Ellrott, and Ying Xu -- The assessment of methods for protein structure prediction / Anna Tramontaro ... [et al.] -- Aligning sequences to structures / Liam James McGuffin -- Protein structure prediction using threading / Jinbo Xu, Feng Jiao, and Libo Yu -- Algorithms for multiple protein structure alignment and structure-derived multiple sequence alignment / Maxim Shatsky, Ruth Nussinov, and Haim J. Wolfson -- Indexing protein structures using suffix trees / Feng Gao and Mohammed J. Zaki -- Hidden Markov models for prediction of protein features / Christopher Bystroff and Anders Krogh -- The pros and cons of predicting protein contact maps / Lisa Bartoli ... [et al.] -- Roadmap methods for protein folding / Mark Moll, David Schwarz, and Lydia E. Kavraki -- Scoring functions for de novo protein structure prediction revisited / Shing-Chung Ngan ... [et al.] -- Protein-protein docking : overview and performance analysis / Kevin Wiehe ... [et al.] -- Molecular dynamics simulations of protein folding / Angel E. Garcia.
  • Protein-ligand interactions 2005, Springer Protocols
  • Proteome analysis 2004, ScienceDirect
  • Quantum dots 2006, Springer Protocols
    Immunofluorescent labeling of proteins in cultured cells with quantum dot secondary antibody conjugates / Richard L. Ornberg and Hongjian Liu -- Immunohistochemical detection with quantum dots / Rizwan S. Akhtar ... [et al.] -- Quantum dots for multicolor clinical pathology and multispectral imaging / Johbu Itoh and Robert Yoshiyuki Osamura -- Light and electron microscopic localization of multiple proteins using quantum dots / Thomas J. Deerinck ... [et al.] -- Human metaphase chromosome fluorescence in situ hybridization using quantum dot conjugates / Joan H.M. Knoll -- Biotin-ligand complexes with streptavidin quantum dots for in vivo cell-labeling of membrane receptors / Diane S. Lidke ... [et al.] -- Single quantum dot tracking of membrane receptors / Cødric Bouzigues ... [et al.] -- Optical monitoring of single cells using quantum dots / Jyoti K. Jaiswal and Sanford M. Simon -- Peptide-mediated intracellular delivery of quantum dots / B. Christoffer Lagerholm -- High-content analysis in multiple cell lines using quantum dots / Paul G. Wylie --Measuring cell motility using quantum dot probes / Weiwei Gu ... [et al.] -- Quantum dots for in vivo molecular and cellular imaging / Xiaohu Gao, Leland W.K. Chung, and Shuming Nie -- Sentinel lymph node mapping with type II quantum dots / John V. Frangioni ... [et al.] -- Macrophage-mediated colocalization of quantum dots in experimental glioma / Osman Muhammad, Alexandra Popescu, and Steven A. Toms -- Applications of quantum dots to multicolor flow cytometry / Pratip K. Chattopadhyay and Mario Roederer -- Quantum dots in flow cytometry / Barnaby Abrams and Tim Dubrovsky -- Luminescent biocompatible quantum dots: a tool for immunosorbent assay design / Ellen R. Goldman ... [et al.] -- Fluorescence-based analysis of cellular protein lysate arrays using quantum dots / David H. Geho ... [et al.] -- Application of quantum dots to multicolor microarray experiments: four-color genotyping / George Karlin-Neumann ... [et al.].
  • Quorum sensing 2011, Springer Protocols
    Bioassays of quorum sensing compounds using Agrobacterium tumefaciens and Chromobacterium violaceum -- Detection of 2-alkyl-4-quinolones using biosensors -- FRET-based biosensors for the detection and quantification of AI-2 class of quorum sensing compounds -- Isolation of agr quorum sensing autoinducers -- Liquid chromatography/mass spectrometry for the detection and quantification of N-acyl-l-homoserine lactones and 4-hydroxy-2-alkylquinolines -- Detection of autoinducer (AI-2)-like activity in food samples -- Detection of bacterial signaling molecules in liquid or gaseous environments -- Determination of acyl homoserine lactone and tetramic acid concentrations in biological samples -- Luminescent reporters and their applications for the characterization of signals and signal-mimics that alter LasR-mediated quorum sensing -- Modulation of mammalian cell processes by bacterial quorum sensing molecules -- Imaging N-acyl homoserine lactone quorum sensing in vivo -- Defining the structure and function of acyl-homoserine lactone autoinducers -- Global expression analysis of quorum-sensing controlled genes -- Small RNA target genes and regulatory connections in the Vibrio cholerae quorum sensing system -- Quantifying pseudomonas aeruginosa quinolones and examining their interactions with lipids -- Linking quorum sensing regulation and biofilm formation by Candida albicans -- Design of synthetic mammalian quorum-sensing systems -- Qualitative and quantitative determination of quorum sensing inhibition in vitro -- Custom synthesis of autoinducers and their analogues -- Heterologous overexpression, purification, and in vitro characterization of ahl lactonases -- High-performance liquid chromatography analysis of N-acyl homoserine lactone hydrolysis by paraoxonases -- Generation of quorum quenching antibodies.
  • Receptor binding techniques. 2nd ed. 2005, Springer Protocols
    Receptor databases and computational websites for ligand binding -- Identification of orphan G protein-coupled receptor ligands using FLIPR assays -- Quantitative analysis of orphan G protein-coupled receptor mRNAs by TaqMan real-time PCR: G2A and GPR4 lysophospholipid receptor expression in leukocytes and in a rat myocardial infarction-heart failure model -- mRNA: detection by in situ and northern hybridization -- Radioligand-binding and molecular-imaging techniques for the quantitative analysis of established and emerging orphan receptor systems -- Measurement of radioligand binding by scintillation proximity assay -- Autoradiography of enzymes, second messenger systems, and ion channels -- Immunocytochemical localization of receptors using light and confocal microscopy with application to the phenotypic characterization of knock-out mice -- Live cell imaging of G protein-coupled receptors --Imaging and characterization of radioligands for positron emission tomography using quantitative phosphor imaging autoradiography -- Dynamic in vivo imaging of receptors in small animals using positron emission tomography.
  • "Once per life cycle, mitotic nuclear divisions are replaced by meiosis I and II - reducing chromosome number from the diploid level to a haploid genome, reshuffling the homologous chromosomes by their centromeres, and recombining chromosome arms by crossing-over. In animals, including humans, all this happens during the germ cell formation of eggs and sperm. Due to the reign of meiosis, no child is a true genetic copy of either parent. Questions still open primarily concern the placement of and mutual coordination between neighboring crossover events. The current book addresses these processes and mechanisms in multicellular eukaryotes, such as Drosophila, Anibidopsis, mice and humans. The pioneering model systems of yeasts, as well as evolutionary aspects, will be addressed in a forthcoming volume."--Jacket.
  • Once per life cycle, mitotic nuclear divisions are replaced by meiosis I and II - reducing chromosome number from the diploid level to a haploid genome and recombining chromosome arms by crossing-over. In animals, all this happens during formation of eggs and sperm - in yeasts before spore formation. The mechanisms of reciprocal exchange at crossover/chiasma sites are central to mainstream meiosis. To initiate the meiotic exchange of DNA, surgical cuts are made as a form of calculated damage that subsequently is repaired by homologous recombination. These key events are accompanied by ancillar.
  • This book provides a comprehensive and up-to-date collection of review articles focusing on RNA-mediated regulation in prokaryotes. The various modes of action include the direct interaction with proteins, direct sensing of metabolites or of physical parameters, and the interaction with RNAs to stimulate or prevent binding of ribosomes or to stimulate degradation. Written by leading experts in the field, the book covers small RNA functions, RNA thermometers, riboswitches, the diversity of small RNA-guided CRISPR-Cas defense systems and selected RNA chaperons in both prokaryotic domains, bacteria and archaea. Recent advances towards the computational identification of regulatory RNAs and their targets are included and particular attention is paid to small RNA in pathogenic bacteria. This volume is the only one exclusively covering regulatory RNAs in the prokaryotic domains to date, making it essential literature for anyone interested in RNA function and gene regulation and a valuable resource for teaching these concepts.
  • Repetitive DNA 2012, Karger
    The Repetitive DNA Content of Eukaryotic Genomes / López-Flores, I.; Garrido-Ramos, M.A. -- Telomere Dynamics in Mammals / Silvestre, D.C.; Londoño-Vallejo, A. -- Drosophila Telomeres: an Example of Co-Evolution with Transposable Elements / Silva-Sousa, R.; López-Panadès, E.; Casacuberta, E. -- The Evolutionary Dynamics of Transposable Elements in Eukaryote Genomes / Tollis, M.; Boissinot, S. -- SINEs as Driving Forces in Genome Evolution / Schmitz, J. -- Unstable Microsatellite Repeats Facilitate Rapid Evolution of Coding and Regulatory Sequences / Jansen, A.; Gemayel, R.; Verstrepen, K.J. -- Satellite DNA Evolution / Plohl, M.; Meštrović, N.; Mravinac, B. -- Satellite DNA-Mediated Effects on Genome Regulation / Pezer, Ž.; Brajković, J.; Feliciello, I.; Ugarković, Đ. -- The Birth-and-Death Evolution of Multigene Families Revisited / Eirín-López, J.M.; Rebordinos, L.; Rooney, A.P.; Rozas, J. -- Chromosomal Distribution and Evolution of Repetitive DNAs in Fish / Cioffi, M.B.; Bertollo, L.A.C..
  • Ribonuclease P 2010, Springer
    History of RNase P and Overview of Its Catalytic Activity -- The Evolution of RNase P and Its RNA -- Over a Decade of Bacterial Ribonuclease P Modeling -- Structural Studies of Ribonuclease P -- Folding of Bacterial RNase P RNA -- Kinetic Mechanism of Bacterial RNase P -- Roles of Metal Ions in RNase P Catalysis -- Challenges in RNase P Substrate Recognition: Considering the Biological Context -- Archaeal RNase P: A Mosaic of Its Bacterial and Eukaryal Relatives -- Eukaryote RNase P and RNase MRP -- RNase P from Organelles -- Human RNase P and Transcription -- RNase P as a Drug Target -- Ribonuclease P as a Tool.
  • RNA 2001, ScienceDirect
  • RNA 2008, Springer Protocols
    The transcriptional landscape -- Working with RNA -- Synthesis of RNA by in vitro transcription -- Efficient poly(A)+ RNA selection using LNA oligo(T) capture -- Genome browsers -- Web-based tools for studying RNA structure and function -- Northern blotting analysis -- Rapid amplification of cDNA ends (RACE) -- Fractionation of mRNA based on the length of the poly(A) tail -- Analysis of mutations that influence pre-mRNA splicing -- S1 nuclease analysis of alternatively spliced mRNA -- Promises and challenges in developing RNAi as a research tool and therapy -- Inhibition of gene function in mammalian cells using short-hairpin RNA (shRNA) -- Validation of RNAi by real time PCR -- Profiling RNA polymerase II using the fast chromatin immunoprecipitation method -- The post-transcriptional operon -- RIP-chip analysis : RNA-binding protein immunoprecipitation-microarray (chip) profiling -- Isolation of RNP granules -- Electrophoretic mobility shift assay for characterizing RNA-protein interaction -- Polysome analysis and RNA purification from sucrose gradients -- Prediction of targets for microRNAs -- Outsourcing of experimental work.
  • Introduction /Michael Levitt --Modeling RNA Molecules /Neocles Leontis and Eric Westhof --Methods for Predicting RNA Secondary Structure /Kornelia Aigner, Fabian Dre€en and Gerhard Steger --Why Can't We Predict RNA Structure At Atomic Resolution? /Parin Sripakdeevong, Kyle Beauchamp and Rhiju Das --Template-Based and Template-Free Modeling of RNA 3D Structure: Inspirations from Protein Structure Modeling /Kristian Rother, Magdalena Rother, Michał Boniecki, Tomasz Puton and Konrad Tomala, et al. --The RNA Folding Problems: Different Levels of sRNA Structure Prediction /Fredrick Sijenyi, Pirro Saro, Zheng Ouyang, Kelly Damm-Ganamet and Marcus Wood, et al. --Computational Prediction and Modeling Aid in the Discovery of a Conformational Switch Controlling Replication and Translation in a Plus-Strand RNA Virus /Wojciech K. Kasprzak and Bruce A. Shapiro --Methods for Building and Refining 3D Models of RNA /Samuel C. Flores, Magdalena Jonikas, Christopher Bruns, Joy P. Ku and Jeanette Schmidt, et al. --Multiscale Modeling of RNA Structure and Dynamics /Feng Ding and Nikolay V. Dokholyan --Statistical Mechanical Modeling of RNA Folding: From Free Energy Landscape to Tertiary Structural Prediction /Song Cao and Shi-Jie Chen --Simulating Dynamics in RNA-Protein Complexes /John Eargle and Zaida Luthey-Schulten --Quantum Chemical Studies of Recurrent Interactions in RNA 3D Motifs /Jiří Šponer, Judit E. Šponer and Neocles B. Leontis --Nonredundant 3D Structure Datasets for RNA Knowledge Extraction and Benchmarking /Neocles B. Leontis and Craig L. Zirbel --Ions in Molecular Dynamics Simulations of RNA Systems /Pascal Auffinger --Modeling RNA Folding Pathways and Intermediates Using Time-Resolved Hydroxyl Radical Footprinting Data /Joshua S. Martin, Paul Mitiguy and Alain Laederach --A Top-Down Approach to Determining Global RNA Structures in Solution Using NMR and Small-Angle X-ray Scattering Measurements /Yun-Xing Wang, Jinbu Wang and Xiaobing Zuo --RNA Structure Determination by Structural Probing and Mass Spectrometry: MS3D /A. E. Hawkins and D. Fabris.
  • The Nobel Prize winning discovery that small interfering RNA can be utilised to control cellular gene expression has propelled the field of RNA interference (RNAi) to the forefront of biomedical science as a potential molecular medicine set to revolutionalise disease treatment. Harnessing the molecular mechanisms of RNAi and development of delivery technologies is crucial for its transformation into a therapeutic modality, this dependency is the focus of "RNA Interference from Biology to Therapeutics" that gives a comprehensive overview of RNAi biology and state-of-the-art delivery methods relevant to clinical translation of RNAi therapeutics. Key players and shapers in the fields of RNAi and delivery science have been assembled in a single volume to produce a truly unique interdisciplinary text, making it a "must-read" for both students and experts in, and at the interface of, RNAi, pharmaceutical science and medicine. An attractive feature is the "future perspectives" section within each chapter that allows global leaders the opportunity to express their views on the direction the field is moving. Topics covered in the book include miRNA biology and therapeutic exploitation, exosome delivery and clinical translation."RNA Interference from Biology to Therapeutics" is an up-to-the-minute, highly informative and invaluable text for those actively involved or interested in this fascinating and high-impact field.
  • 1. RNA polymerases and transcription factors of trypanosomes / Arthur Günzl -- 2. SL RNA biogenesis in kinetoplastids: a long and winding road / Nancy R. Sturm, Jesse R. Zamudio, and David A. Campbell -- 3. Pre-mRNA splicing in trypanosoma brucei: factors, mechanisms, and regulation / Christian Preusser, Nicolas Jaé, Arthur Günzl, and Albrecht Bindereif -- 4. mRNA turnover in trypanosomes / Christine Clayton -- 5. tRNA biogenesis and processing / Jessica L. Spears, Mary Anne T. Rubio, Paul J. Sample, and Juan D. Alfonzo -- 6. rRNA biogensis in trypanosomes / Shulamit Michaeli -- 7. RNA editing in African trypanosomes: a U-ser's G-U-ide / H. Ulrich Göringer -- 8. The RNA interference pathway in trypanosoma brucei / Elisabetta Ullu, Nikolay G. Kolev, Rebecca L. Barnes, and Christian Tschudi -- 9. Translation in trypanosomatids -- 10. Mitochondrial translation in trypanosomatids / Dmitri A. Maslov and Rajendra K. Agrawal -- 11. RNA-Seq analysis of the transcriptome of trypanosoma brucei / Jan Mani, Kapila Gunasekera, and Isabel Roditi.
  • The key features of RNA silencing / Kuniaki Saito ... [et al.] -- Selected strategies for the delivery of siRNA in vitro and in vivo / Sandra D. Laufer ... [et al.] -- RNAi suppression and its application / Xiaoping Yi, Rui Lu -- Strategies to prevent siRNA-triggered cellular toxicity / Matthias Bauer -- RNAi in malignant brain tumors: relevance to molecular and translational research / Mitsutoshi Nakada ... [et al.] -- Silencing Huntington's disease gene with RNAi / Yu Zhang, Robert M. Friedlander -- Application of Dicer-substrate siRNA in pain research / Philippe Sarret ... [et al.] -- RNAi treatment of HIV-1 infection / Karin J. von Eije, Ben Berkhout -- Application of RNA interference to treat conditions associated with dysregulation of transient receptor potential vanilloid 1 channel / Vickram Ramkumar ... [et al.] -- Harnessing RNAi-based functional genomics to unravel the molecular complexity underlying skin pigment variation / Hsiang Ho ... [et al.] --mRNA structure and its effects on posttranscriptional gene silencing / Stephen I. Rudnick, Veenu Aishwarya, Alan M. Gewirtz -- Antisense RNA-mediated regulation of the p53 tumor suppressor / Marianne Farnebo, Klas G. Wiman -- Antisense oligonucleotides: insights from preclinical studies and clinical trials / Doreen Kunze, Kai Kraemer, Susanne Fuessel -- What can the new hammerhead ribozyme structures teach us about design? / William G. Scott -- microRNA biogenesis and its impact on RNA interference / Stefanie Grund, Sven Diederichs -- MicroRNAs in epithelial antimicrobial immunity / Jun Liu ... [et al.] -- Emerging roles of long noncoding RNAs in gene expression and intracellular organization / Tetsuro Hirose -- Noncoding RNAs as therapeutic targets / Maciej Szymański, Jan Barciszewski -- Noncoding RNAs at H19/IGF2 locus: role in imprinting, gene expression, and associated pathologies / Nahalie Berteaux, Nathalie Spruyt, Eric Adriaenssens.
  • 1. Isolation of a sequence-specific RNA binding protein, polypyrimidine tract binding protein using RNA affinity chromatography / Shalini Sharma -- 2. An affinity oligonucleotide displacement strategy to purify ribonucleoprotein complexes applied to human telomerase /Isabel Kurth, Gaël Cristofari, Joachim Lingner -- 3. RNA affinity tags for the rapid purification and investigation of RNAs and RNA-protein complexes / Scott C. Walker ... [et al.] -- 4. Assembly and glycerol gradient isolation of yeast spliceosomes containing transcribed or synthetic U6 SnRNA / Ken Dery, Shyue-Lee Yean, Ren-Jang Lin -- 5. Purification of ribonucleoproteins using peptide-elutable antibodies and other affinity techniques / Scott Stevens -- 6. CLIP: cross-linking and immunoprecipitation of in vivo RNA targets of RNA binding proteins / Kirk B Jensen, Robert B. Darnell -- 7. Quantitative analysis of protein-RNA interactions by gel mobility shift / Sean P. Ryder, Michael I. Recht, James R. Williamson -- 8. Monitoring assembly of ribonucleoprotein complexes by isothermal titration calorimetry / Michael I. Recht, Sean P. Ryder, James R. Williamson -- 9. Characterization of RNA-protein interactions by phosphorothioate footprinting and its applications to the ribosome / A. Ozlem Tastan Bishop, ... [et al.] -- 10. In vivo analysis of ribonucleoprotein complexes using nucleotide analog interference mapping / Lara Weinstein Szewczak -- 11. T7 RNA polymerase mediated incorporation of 8-N3AMP into RNA for studying protein-RNA interactions / Rajesh Gaur -- 12. A simple crosslinking method, CLAMP, to map the sites of RNA contacting domains within a protein / Hiren Banerjee, Ravinder Singh -- 13. Proteins specifically modified with a chemical nuclease as probes of RNA-protein interaction / Oliver A. Ken, Andrew M. MacMillan -- 14. RNA-protein crosslink mapping using TEV protease / Ian A. Turner, ... [et al.] -- 15 Structural analysis of protein-RNA interactions with mass spectrometry / Mamuka Kvaratskhelia, Stuart F.J. Le Grice -- 16. Analysing RNA-protein cross-linking sites in unlabeled ribonucleoprotein complexes by mass spectrometry / Henning Urlaub, Eva Kühn-Hölsken, Reinhard Lührmann --17. In vitro selection of random RNA fragments to identify protein binding sites within large RNAs / Ulrich Stelzl, Knud H. Nierhaus -- 18. Immunoprecipitation analysis to study RNA-protein interactions in xenopus oocytes / Naoto Mabuchi, Kaoru Masuyama, Mutsuhito Ohno -- 19. Mapping the regions of RNase P catalytic RNA that are potentially in close contact with its protein cofactor / Phong Trang, Fenyong Liu -- 20. Quantification of microRNAs, splicing isoforms, and homologous mRNAs with the invader assay / Peggy S. Eis, Mariano Garcia-Blanco -- 21. Analysis of RNA structure and RNA-protein interactions in mammalian cells by use of terminal transferase-dependent PCR / Hsiu-Hua Chen, Jeanne LeBon, Arthur D. Riggs -- 22. Duplex unwinding and RNP remodeling with RNA helicases / Eckhard Jankowsky, Margaret E. Fairman -- 23. Preparation of efficient splicing extracts from whole cells, nuclei, and cytoplasmic fractions / Naoyuki Kataoka, Gideon Dreyfuss -- 24. Designing and utilization of siRNAs targeting RNA-binding proteins / Dong-Ho Kim, Mark Behlke, John J. Rossi -- 25. The use of saccharomyces cerevisiae proteomic libraries to identify RNA-modifying proteins / Jane E. Jackman, Eric M. Phizicky.
  • RNAi 2008, Springer Protocols
  • RT-PCR protocols 2002, Springer Protocols
  • Selenium. 3rd ed. 2012, Springer
  • Applications of pressure cycling technology (PCT) in proteomics / Feng Tao ... [et al.] -- Applications of ion-exchange (IEX) chromatography to reduce sample complexity prior to two-dimensional gel electrophoresis (2DE) / Malcolm G. Pluskal, Eva Golenko, and Mary F. Lopez -- Separations in proteomics: use of camelid antibody fragments in the depletion and enrichment of human plasma proteins for proteomics applications / Mark ten Haaft, Pim Hermans, and Bruce Dawson -- Novel plasma protein separation strategy using multiple avian IgY antibodies for proteomic analysis / Sun W. Tam ... [et al.] -- Immunoaffinity depletion of high-abundant proteins for proteomic sample preparation / Nina Zolotarjova ... [et al.] -- Isolation of plasma membrane proteins for proteomic analysis / Catherine Fenselau and Amir Rahbar -- New ultrafiltration and solid phase extraction techniques improve serum peptide detection / Elena Chernokalskaya ... [et al.] -- Tools for sample preparation and prefractionation in two-dimensional (2D) gel electrophoresis / Anton Posch, Aran Paulus, and Mary Grace Brubacher -- Optic nerve fractionation for proteomics / Sanjoy K. Bhattacharya ... [et al.] -- Fractionation of retina for proteomic analyses / Sanjoy K. Bhattacharya ... [et al.] -- Reducing protein sample complexity with free flow electrophoresis (FFE) / Askar Kuchumov, Gerhard Weber, Christoph Eckerskorn --Destreaking strategies for two-dimensional electrophoresis / Fengju Bai, Sheng Liu, and Frank A. Witzmann -- Proteomic approaches to the study of rheumatoid arthritis / Mikaela Antonovici ... [et al.] -- Immunoglobulin patterns in health and disease / Ingrid Miller and Marcia Goldfarb -- Difference gel electrophoresis (DIGE) / Mustafa Unlu and Jonathan Minden -- Principles and challenges of basic protein separation by two-dimensional (2D) electrophoresis / Anton Posch, Aran Paulus, and Mary Grace Brubacher -- Multidimensional separation of membrane proteins / Susan Francis-McIntyre and Simon J. Gaskell -- Structural approaches to glycoproteomics / Heidi Geiser, Cristina Silvescu, and Vernon Reinhold -- Enrichment and analysis of glycoproteins in the proteome / Nicole L. Wilson, Niclas G. Karlsson, and Nicolle H. Packer -- Proteomic analyses using high-efficiency separations and accurate mass measurements / Jon M. Jacobs and Richard D. Smith -- Middle-out proteomics: incorporating multidimensional protein fractionation and intact protein mass analysis as elements of a proteomic workflow / Scott J. Berger ... [et al.] -- Polymeric monolithic capillary columns in proteomics / Alexander R. Ivanov -- Proteins staining in polyacrylamide gels / Gary B. Smejkal -- Multiplexed proteomics: fluorescent detection of proteins, glycoproteins, and phosphoproteins in two-dimensional (2D) gels / Birte Aggeler-Schulenberg -- Glyoxyl agarose and its composite gels: advantageous alternatives to polyacrylamide gel electrophoresis for very large and small proteins and peptides and all sizes in between / John R. Shainoff -- Nuclear magnetic resonance-driven chemical proteomics: the functional and mechanistic complement to proteomics / Phani Kumar Pullela and Daniel S. Sem -- Electrophoretic nuclear magnetic resonance in proteomics: toward high-throughput structural characterization of biological signaling processes / Qiuhong He and Xiangjin Song.
  • Single molecule biology 2009, ScienceDirect
    The "single molecule" paradigm / Alex E. Knight -- Single molecule studies of myosins / Rachel E. Farrow ... [et al.] -- Single molecule experiments and the kinesin motor protein superfamily : walking hand in hand / Lukas C. Kapitein and Erwin J.G. Peterman -- Force-generating mechanisms of dynein revealed through single molecule studies / Kazuhiro Oiwa and Hiroaki Kojima -- The bacterial flagellar motor / Yoshiyuki Sowa and Richard M. Berry -- Single molecule studies of chromatin structure and dynamics / Sanford H. Leuba and Laurence R. Brewer -- Single molecule studies of nucleic acid enzymes / Samir M. Hamdan and Antoine M. van Oijen -- Single molecule studies of prokaryotic translation / Colin Echeverría Aitken ... [et al.] -- Single ion channels / David Colquhoun, Remigijus Lape, and Lucia Sivilotti -- Single molecule fluorescence in membrane biology / Lydia M. Harriss and Mark I. Wallace -- Single molecule microarray analysis / Jan Hesse ... [et al.].
  • Star polymer surface passivation for single-molecule detection / Jürgen Groll and Martin Moeller -- Azide-specific labeling of biomolecules by Staudinger-Bertozzi ligation: phosphine derivatives of fluorescent probes suitable for single-molecule fluorescence spectroscopy / Anirban Chakraborty ... [et al.] -- Preparation of fluorescent pre-mRNA substrates for an smFRET study of pre-mRNA splicing in yeast / John Abelson, Haralambos Hadjivassiliou and Christine Guthrie -- Nanovesicle trapping for studying weak protein interactions by single-molecule FRET / Jaime J. Benítez, Aaron M. Keller and Peng Chen -- Droplet confinement and fluorescence measurement of single molecules / Lori S. Goldner, Ana M. Jofre and Jianyong Tang -- Single-molecule fluorescence spectroscopy using phospholipid bilayer nanodiscs / Abhinav Nath ... [et al.] -- Single-molecule spectroscopy using microfluidic platforms / Samuel Kim and Richard N. Zare -- Detection of protein-protein interactions in the live cell plasma membrane by quantifying prey redistribution upon bait micropatterning / Julian Weghuber ... [et al.] -- Analysis of complex single-molecule FRET time trajectories / Mario Blanco and Nils G. Walter -- Single-molecule fluorescence studies of intrinsically disordered proteins / Allan Chris M. Ferreon ... [et al.] -- Measuring the energetic coupling of tertiary contacts in RNA folding using single molecule fluorescence resonance energy transfer / Max Greenfield and Daniel Herschlag -- A highly purified, fluorescently labeled in vitro translation system for single-molecule studies of protein synthesis / Jingyi Fei ... [et al.] -- Watching individual proteins acting on single molecules of DNA / Ichiro Amitani ... [et al.] -- DNA curtains for high-throughput single-molecule optical imaging / Eric C. Greene ... [et al.] -- Scanning FCS for the characterization of protein dynamics in live cells / Zdenĕk Petrás̆ek, Jonas Ries and Petra Schwille -- Observing protein interactions and their stoichiometry in living cells by brightness analysis of fluorescence fluctuation experiments / Yan Chen ... [et al.] -- Detection of individual endogenous RNA transcripts in situ using multiple singly labeled probes / Arjin Raj and Sanjay Tyagi -- Single mRNA tracking in live cells / Hye Yoon Park, Adina R. Buxbaum and Robert H. Singer -- Single-molecule sequencing: sequence methods to enable accurate quantitation / Christopher Hart ... [et al.] -- Real-time DNA sequencing from single polymerase molecules / Jonas Korlach ... [et al.].
  • Small molecule microarrays 2010, Springer Protocols
    The Expanding World of Small Molecule Microarrays / Mahesh Uttamchandani and Shao Q. Yao -- Construction of Photo-Cross-Linked Microarrays of Small Molecules / Naoki Kanoh -- Small Molecule Microarray : Functional-Group Specific Immobilization of Small Molecules / Hyang Yeon Lee and Seung Bum Park -- Detecting Protein-Small Molecule Interactions Using Fluorous Small Molecule Microarrays / Arturo J. Vegas and Angela N. Koehler -- A Method for Small Molecule Microarray-Based Screening for the Rapid Discovery of Affinity-Based Probes / Haibin Shi, Mahesh Uttamchandani, and Shao Q. Yao -- Nanodroplet Chemical Microarrays and Label-Free Assays / Dhaval Gosalia and Scott L. Diamond -- Nanodroplet Microarrays for High-Throughput Enzyme Screening / Kang L.D. Aw, Shao Q. Yao, and Mahesh Uttamchandani.The Application of the Chemical Array for Biological Study / Isao Miyazaki, Siro Simizu, and Hiroyuki Osada -- Peptide Arrays with a Chip / Alexander Nesterov, Edgar Dörsam, Yun-Chien Cheng, Christopher Schirwitz, Frieder Märkle, Felix Löffler, Kai König, Volker Stadler, Ralf Bischoff, and Frank Breitling -- In situ Chemical Modification of Peptide Microarrays : Characterization by Desorption/Ionization on Silicon Nanowires / Gaëlle Piret, Herv Drobecq, Carine Rouanet, Karim Chemlal, Anne-Sophie Debrie, Jean-Michel Hougardy, Françoise Mascart, Camille Locht, and Oleg Melnyk -- Peptide Microarrays on Coated Silicon Slides for Highly Sensitive Antibody Detection / Marina Cretich, Francesco Damin, Renato Longhi, Cecilia Gotti, Clelia Galati, Lucio Renna, and Marcella Chiari.Antibody Signatures Defined by High-Content Peptide Microarray Analysis / Antonia Masch, Johannes Zerweck, Ulf Reimer, Holger Wenschuh, and Mike Schutkowski -- High Density Peptide Microarrays for Proteome-Wide Fingerprinting of Kinase Activities in Cell Lysates / Alexandra Thiele, Matthias Weiwad, Johannes Zerweck, Gunter Fischer, and Mike Schutkowski -- A Peptide Microarray for Detecting Protein Kinase Activity in Cell Lysates / Xiaoming Han and Yoshiki Katayama -- Chemical Microarrays Constructed by Selective Attachment of Hydrazide-Conjugated Substances to Epoxide Surfaces and Their Applications / Sungjin Park, Myung-Ryul Lee, and Injae Shin -- A Microarray-Based Method to Perform Nucleic Acid Selections / Olga Aminova and Matthew D. Disney.
  • Somatic embryogenesis 2006, Springer
  • Part I. Basic statistics -- 1. Experimental statistics for biological sciences / Heejung Bang and Marie Davidian -- 2. Nonparametric methods for molecular biology / Knut M. Wittkowski and Tingting Song -- 3. Basics of Bayesian methods / Sujit K. Ghosh -- 4. The Bayesian t-test and beyond / Mithat Gönen -- -- Part II. Designs and methods for molecular biology -- 5. Sample size and power calculation for molecular biology studies / Sin-Ho Jung -- 6. Designs for linkage analysis and association studies of complex diseases / Yuehua Cui ... [et al.] -- 7. Introduction to epigenomics and epigenome-wide analysis / Melissa J. Fazzari and John M. Greally -- 8. Exploration, visualization, and preprocessing of high-dimensional data / Zhijin Wu and Zhiqiang Wu -- -- Part III . Statistical methods for microarray data -- 9. Introduction to the statistical analysis of two-color microarray data / Martina Bremer, Edward Himelblau, and Andreas Madlung -- 10. Building networks with microarray data / Bradley M. Broom ... [et al.] -- Part IV. Advanced or specialized methods for molecular biology -- 11. Support vector machines for classification: a statistical portrait / Yoonkyung Lee -- 12. An overview of clustering applied to molecular biology / Rebecca Nugent and Marina Meila -- 13. Hidden Markov model and its applications in motif findings / Jing Wu and Jun Xie -- 14. Dimension reduction for high-dimensional data / Lexin Li -- 15. Introduction to the development and validation of predictive biomarker models from high-throughput data sets / Xutao Deng and Fabien Campagne -- 16. Multi-gene expression-based statistical approaches to predicting -- patients' clinical outcomes and responses / Feng Cheng, Sang-Hoon Cho, and Jae K. Lee -- 17. Two-stage testing strategies for genome-wide association studies in family-based designs / Amy Murphy, Scott T. Weiss, and Christoph Lange -- 18. Statistical methods for proteomics / Klaus Jung -- -- Part V. Meta-analysis for high-dimensional data -- 19. Statistical methods for integrating multiple types of high-throughput data / Yang Xie and Chul Ahn -- 20. A Bayesian hierarchical model for high-dimensional meta-analysis / Fei Liu -- 21. Methods for combining multiple genome-wide linkage studies / Trecia A. Kippola and Stephanie A. Santorico -- -- Part VI. Other practical information -- 22. Improved reporting of statistical design and analysis: guidelines, education, and editorial policies / Madhu Mazumdar, Samprit Banerjee, and Heather L. Van Epps -- 23. Stata companion / Jennifer Sousa Brennan.
  • Markov models in molecular evolution / Nicolas Galtier, Olivier Gascuel, and Alain Jean-Marie -- Introduction to applications of the likelihood function in molecular evolution / Jutta Buschbom and Arndt von Haeseler -- Introduction to Markov chain Monte Carlo methods in molecular evolution / Bret Larget -- Population genetics of molecular evolution / Carlos D. Bustamante -- Maximum likelilhood methods for detecting adaptive protein evolution / Joseph P. Bielawski and Ziheng Yang -- HyPhy: hypothesis testing using phylogenies / Sergei L. Kosakovsky Pond and Spencer V. Muse -- Bayesian analysis of molecular evolution using MrBayes / John P. Huelsenbeck and Fredrik Ronquist -- Estimation of divergence times from molecular sequence data / Jeffrey L. Thorne and Hirohisa Kishino -- Markov models of protein sequence evolution / Matthew W. Dimmic -- Models of microsatellite evolution / Peter Calabrese and Raazesh Sainudiin -- Genome rearrangement / Rick Durrett -- Phylogenetic hidden Markov models / Adam Siepel and David Haussler -- The evolutionary causes and consequences of base composition variation / Gilean A.T. McVean -- Statistical alignment: recent progress, new applications, and challenges / Gerton Lunter ... [et al.] -- Estimating substitution matrices / Von Bing Yap and Terry Speed -- Posterior mapping and posterior predictive distributions / Jonathan P. Bollback -- Assessing the uncertainty in phylogenetic inference / Hidetoshi Shimodaira and Masami Hasegawa.
  • Bioinformatics in membrane protein analysis / Bengt Persson -- Prokaryotic membrane transport proteins / Joanne Clough ... [et al.] -- Membrane protein production strategies for structural genomics / Said Eshaghi and Par Nordlund -- Refolding of membrane proteins for large-scale production / Hans Kiefer, Thomas Ostermann, Monika Bahner -- Crystallization of membrane proteins / Alastair T. Gardiner, June Southall, and Richard J. Cogdell -- Signaling through membrane proteins / J. Robert Bostwick and Deborah S. Hartman -- Expression of membrane proteins in yeasts / Christoph Reinhart, Christoph Krettler -- Expression of functional membrane proteins in the baculovirus-insect cell system / Giel J.C.G.M. Bosman and Willem J. de Grip -- Expression of membrane proteins in mammalian cells / Kenneth Lundstrom -- Solubilization and purification of membrane proteins / Bernadette Byrne and Mika Jormakka -- Fluorescent labelling of membrane proteins in living cells / Ruud Hovius ... [et al.] -- Membrane protein NMR / Xiang-Qun (Sean) Xie -- Miniaturization of structural biology technologies--from expression to biophysical analyses / Enrique Abola, Peter Kuhn, and Raymond C. Stevens -- Electron microscopy and atomic force microscopy of reconstituted membrane proteins / Andreas Engel -- -- Structural genomics networks for membrane proteins / Kenneth Lundstrom -- Molecular modelling of membrane proteins / Slawomir Filipek and Anna Modzelewska -- Towards structural bases for GPCR ligand-binding / Sabrina A. Beretta ... [et al.].
  • Structural proteomics 2008, Springer Protocols
    Target selection for structural genomics : an overview / Russell L. Marsden and Christine A. Orengo -- A general target selection method for crystallographic proteomics / Gautier Robin ... [et al.] -- Target selection : triage in the structural genomics battlefield / James Raftery -- Data management in structural genomics : an overview / Sabrina Haquin ... [et al.] -- Data deposition and annotation at the worldwide protein data bank / Shuchismita Dutta ... [et al.] -- Prediction in protein disorder / Zsuzsanna Dosztányi and Peter Tompa -- Protein domain prediction / Helgi Ingolfsson and Golan Yona -- Protein structure modeling with MODELLER / Narayanan Eswar ... [et al.] -- High throughput cloning with restriction enzymes / Volker Sievert, Asgar Ergin, and Konrad Bussow -- Automated recombinant protein expression screening in Escherichia coli / Didier Busso ... [et al.] -- From no expression to high-level soluble expression in Escherichi coli by screening a library of the target proteins with randomized N-termini / Kyoung Hoon Kim ... [et al.] -- Application of high-throughput methodologies to the expression of recombinant proteins in E. coli / Yoav Peleg and Tamar Unger -- A high throughput platform for eukaryotic genes / Yunjia Chen ... [et al.] -- High throughput production of recombinant human proteins for crystallography / Opher Gileadi ... [et al.] -- Assembly of protein complexes by coexpression in prokaryotic and eukaryotic hosts : an overview / Anastassis Perrakis and Christophe Romier -- Cell-free protein synthesis for analysis by NMR spectroscopy / Margit A. Apponyi ... [et al.] --A medium or high throughput protein refolding assay / Nathan P. Cowieson ... [et al.] -- Structural proteomics of membrane proteins : a survey of published techniques and design of a rational high throughput strategy / Melissa Swope Willis and Christopher M. Koth -- Methods for protein characterization by mass spectrometry, thermal shift (ThermoFluor) assay, and multiangle or static light scattering / Joanne E. Nettleship ... [et al.] -- High throughput methods for analyzing transition metals in proteins on a microgram scale / Anelia Atanassova, Martin Högbom, and Deborah B. Zamble -- High throughput screening of purified proteins for enzymatic activity / Michael Proudfoot ... [et al.] -- Strategies for improving crystallization success rates / Rebecca Page -- Protein crystallization in restricted geometry : advancing old ideas for modern times in structural proteomics / Joseph D. Ng, Raymond C. Stevens, and Peter Kuhn -- Fluorescence approaches to growing macromolecule crystals / Marc Pusey, Elizabeth Forsythe, and Aniruddha Achari -- Efficient macromoleular crystallization using microfluidics and randomized design of screening reagents / Andrew P. May and Brent W. Segelke -- Increasing protein crystallization screening success with heterogeneous nucleating agents / Anil S.Thakur ... [et al.] -- High throughput pH optimization of protein crystallization / Ran Meged, Orly Dym, and Joel L. Sussman -- Automated structure solution with the PHENIX suite / Peter H. Zwart ... [et al.] -- NMR screening for rapid protein characterization in structural proteomics / Justine M. Hill -- Microcoil NMR spectroscopy : a novel tool for biological high throughput NMR spectroscopy / Russell E. Hopson and Wolfgang Peti --Protein structure determination using a combination of cross-linking, mass spectrometry, and molecular modeling / Dmitri Mouradov ... [et al.] -- Structural genomics of minimal organisms : pipeline and results / Sung-Hou Kim ... [et al.] -- Structural genomics of pathogenic protozoa : an overview / Erkang Fan ... [et al.] -- High throughput crystallography at SGC Toronto : an overview / Alexey Bochkarev and Wolfram Tempel -- The structural biology and genomics platform in Strasbourg : an overview / Didier Busso, Jean-Claude Thierry, and Dino Moras -- Bacterial structural genomics initiative : overview of methods and technologies applied to the process of structure determination / Miroslaw Cygler ... [et al.] -- High-throughput protein production and crystallization at NYSGXRC / Michael J. Sauder ... [et al.] -- Overview of the pipeline for structural and functional characterization of macrophage proteins at the University of Queensland / Weining Meng ... [et al.] -- Structural genomics of the bacterial mobile metagenome : an overview / Andrew Robinson ... [et al.].
  • Systems biology 2007, Springer
  • Systems biology 2005, Springer
  • This book summarizes the state-of-the art in the development of T cell-based in vitro assays, which offer useful tools for hazard identification, risk assessment and improvement of diagnostics. It will be of interest to scientists, the chemical and pharmaceutical industry, and regulators involved in the replacement of animal testing methods. The identification of hazardous chemicals and drugs is essential to ensuring human health. The ban on animal testing for the cosmetics industry since 2009 and international efforts to reduce and replace animal testing in research and immunotoxicology call for alternative in vitro methods. The most specific immune response to chemicals and drugs that cause allergic contact dermatitis, respiratory disease and adverse drug reactions is the highly antigen-specific T lymphocyte response. Therefore the use of T cells as tools for identifying contact allergens and drugs that may cause health problems is of great interest.
  • Tetrapyrroles 2009, Springer
    An historical introduction to porphyrin and chlorophyll synthesis / Michael R. Moore -- Biosynthesis of 5-aminolevulinic acid / Dieter Jahn and Dirk W. Heinz -- 5-aminolaevulinic acid dehydratase, porphobilinogen deaminase and uroporphyrinogen III synthase / Heidi L. Schubert, Peter T. Erskine and Jonathan B. Cooper -- Transformation of uroporphyrinogen III into protohaem / Johanna E. Cornah and Alison G. Smith -- Inherited disorders of haem synthesis: the human porphyrias / Michael N. Badminton and George H. Elder -- Heme degradation: mechanistic and physiological implications / Angela Wilks -- Regulation of mammalian heme biosynthesis / Amy E. Medlock and Harry A. Dailey -- Tetrapyrroles in photodynamic therapy / David I. Vernon and Ian Walker -- Heme transport and incorporation into proteins / Linda Thöny-Meyer -- Heme and hemoproteins / Andrew W. Munro ... [et al.] -- Novel heme-protein interactions: some more radical than others / Ann Smith -- Synthesis and role of bilins in photosynthetic organisms / Nicole Frankenberg-Dinkel and Matthew J. Terry -- Phytochromes: bilin-linked photoreceptors in bacteria and plants / Matthew J. Terry and Alex C. McCormac --Biosynthesis of chlorophyll and bacteriochlorophyll / Derren J. Heyes and C. Neil Hunter -- Regulation of tetrapyrrole synthesis in higher plants / Matthew J. Terry and Alison G. Smith -- Regulation of the late steps of chlorophyll biosynthesis / Wolfhart Rudiger -- Chlorophyll breakdown / Bernhard Kräutler -- Vitamin B12: biosynthesis of the corrin ring / Ross M. Graham, Evelyne Deery and Martin J. Warren -- Conversion of cobinamide into coenzyme B12 / Jorge C. Escalante-Semerena ... [et al.] -- The regulation of cobalamin biosynthesis / Jeffrey G. Lawrence -- Coenzyme B12-catalyzed radical isomerizations / Dominique Padovani and Ruma Banerjee -- Biosynthesis of siroheme and coenzyme F430 / Martin J. Warren, Evelyne Deery and Ruth-Sarah Rose -- Role of coenzyme F430 in methanogenesis / Evert C. Duin -- The role of siroheme in sulfite and nitrite reductases / M. Elizabeth Stroupe and Elizabeth D. Getzoff -- The role of heme d1 in denitrification / Stuart J. Ferguson.
  • Scientific Foundation for Global Computing / Robin Milner -- Interdisciplinary Innovation in International Initiatives / John C. Wooley -- A Grand Challenge for Converging Sciences / Ronan Sleep -- Applying Computer Science Research to Biodiversity Informatics: Some Experiences and Lessons / Andrew C. Jones -- e-Science and the VL-e Approach / L.O. (Bob) Hertzberger -- From Syntax to Semantics in Systems Biology Towards Automated Reasoning Tools / François Fages -- SYMBIONIC: A European Initiative on the Systems Biology of the Neuronal Cell / Ivan Arisi, Paola Roncaglia, Vittorio Rosato, Antonino Cattaneo -- A Biological Approach to Autonomic Communication Systems / Iacopo Carreras, Imrich Chlamtac, Francesco De Pellegrini, Csaba Kiraly, Daniele Miorandi, Hagen Woesner -- The Twilight of the Despotic Digital Civilization / Michel Riguidel -- A Compositional Approach to the Stochastic Dynamics of Gene Networks / Ralf Blossey, Luca Cardelli, Andrew Phillips -- A Weighted Profile Based Method for Protein-RNA Interacting Residue Prediction / Euna Jeong, Satoru Miyano.
  • Introduction: strategies for developing genetically modified mice / Marten H. Hofker -- Genetic modification of the mouse: general technology - pronuclear and blastocyst injection / Jan Willem Voncken -- Generation of chimeras by aggregation of embryonic stem cells with diploid or tetraploid mouse embryos / Jérôme Artus and Anna-Katerina Hadjantonakis -- Cryopreservation of mouse spermatozoa and in vitro fertilization / Naomi Nakagata -- Autopsy and histological analysis of the transgenic mouse / Marion J.J. Gijbels and Menno P.J. de Winther -- Transgene design / Bart van de Sluis and Jan Willem Voncken -- Inducible transgenic mouse models / Thomas L. Saunders -- Lentiviral transgenesis / Terunaga Nakagawa and Casper C. Hoogenraad -- Transgenesis in mouse embryonic stem cells / Janine van Ree, Wei Zhou, Ming Li, and Jan M. van Deursen -- Engineering BAC reporter gene constructs for mouse transgenesis / Yu Fu and Peter Maye -- Targeting vector construction through recombineering / Liviu A. Malureanu -- Generating conditional knockout mice / Roland H. Friedel, Wolfgang Wurst, Benedikt Wefers, and Ralf Kühm -- Hypomorphic mice / Darren J. Baker -- MICER targeting vectors for manipulating the mouse genome / Chunbong Liu, Paul F. Szurek, and Y. Eugene Yu -- Knock-in approaches / Anton J.M. Roebroek, Philip L.S.M. Gordts, and Sara Reekmans -- Generation of a series of knock-in alleles using RMCE in ES cells / Anton J.M. Roebroek, Philip L.S.M. Gordts, and Sara Reekmans -- Selection of targeting mutants from a library of randomly mutagenized ES cells / Kyoji Horie, George Gaitanaris, and Alexander Gragerov -- Generation of genetically modified rodents using random ENU mutagenesis / Ruben van Boxtel and Edwin Cuppen -- Bone marrow transplantations of study gene function in hematopoietic cells / Menno P.J. de Winther and Peter Heeringa -- Adenovirus-mediated gene transfer / Ko Willems van Dijk, Kyriakos E. Kyreos, Frits J. Fallaux, and Jurre Hageman.
  • Translational stem cell research : what is possible today and what still remains to be achieved? -- Translating stem cell research knowledge from bench to bedside : ethical issues -- Creation of human-animal entities for translational stem cell research : scientific, ethical and regulatory challenges -- Stem cell banking for translational stem cell research or stem cell-based therapies -- Translational stem cell research and commercial funding -- Patenting of human stem cell-based inventions : scientific, ethical and regulatory issues -- From general public to researchers, and vice versa : communication issues in translational stem cell research -- Translational stem cell research and its psychological implications -- Ethical evaluation of translational stem cell research projects in research ethics committees -- Looking at the future of translational stem cell research and stem cell-based therapeutic applications : risks, long-term effects, and priority setting.
  • Bioluminescence resonance energy transfer to monitor protein-protein interactions / Tarik Issad and Ralf Jockers -- Identification of interacting proteins using the yeast two-hybrid screen / Kelly L. Jordan-Sciutto and Marshall B. Montgomery -- Analysis of PDZ domain interactions using yeast two-hybrid and coimmunoprecipitation assays / Hyun Woo Lee, Jaewon Ko, and Eunjoon Kim -- Clustering assay for studying the interaction of membrane proteins with PDZ domain proteins / Jaewon Ko and Eunjoon Kim -- Mammalian cell microinjection assay to study the function of Rho family guanosine triphosphatases / Ritu Garg and Anne J. Ridley -- Affinity-based assay of Rho guanosine triphosphatase activation / Mary Stofega, Celine DerMardirossian, and Gary M. Bokoch -- Assay for phospholipase D in cell-free systems / Shankar S. Iyer and David J. Kusner -- Reconstitution system based on cytosol-depleted cells to study the regulation of phospholipase D / Amanda Fensome-Green and Shamshad Cockcroft -- Analysis of global gene expression profiles activated by chemoattractant receptors / Fernando O. Martinez and Massimo Locati -- Genetic reconstitution of bone marrow for the study of signal transduction ex vivo / Martha S. Jordan -- Proteomic analysis of human neutrophils / George Lominadze ... [et al.].Transmembrane signaling by G protein-coupled receptors / Louis M. Luttrell -- Crosstalk coregulation mechanisms of G protein-coupled receptors and receptor tyrosine kinases / Kanchana Nataranjan and Bradford C. Berk -- Protein-protein interactions in signaling cascades / Bruce J. Mayer -- Biological role of the CXCR4-SDF-1 axis in normal human hematopoietic cells / Marcin Majka and Mariusz Z. Ratajczak -- Functional expression of CXCR4 in Saccharomyces cerevisiae in the development of powerful tools for the pharmacological characterization of CXCR4 / Zi-xuan Wang, James R. Broach, and Stephen C. Peiper -- Characterization of constitutively active mutants of G protein-coupled receptors / Jean-Marc Navenot, Zi-xuan Wang, and Stephen C. Peiper -- G protein-coupled receptor dimerization and signaling / Mario Mellado ... [et al.] -- Real-time analysis of G protein-coupled receptor signaling in live cells / Venkatakrishna R. Jala and Bodduluri Haribabu -- Isolation of membrane rafts and signaling complexes / Kathleen Boesze-Battaglia -- Methods for the study of signaling molecules in membrane lipid rafts and caveolae / Rennolds S. Ostrom and Paul A. Insel --
  • Ubiquitin-proteasome protocols 2005, Springer Protocols
    Assays of proteasome-dependent cleavage products / Stefan Tenzer and Hansjörg Schild -- Identification of components of protein complexes / Carol E. Parker ... [et al.] -- Mass spectroscometric determination of protein ubiqitination / Carol E. Parker ... [et al.] -- Reconstitution of endoplasmic reticulum-associated degradation using yeast membranes and cytosol / Robert J. Lee, Ardythe A. McCracken, and Jeffrey L. Brodsky -- Reticulocyte lysate as a model system to study endoplasmic reticulum membrane protein degradation / Eric Carlson ... [et al.] -- Deubiquitinating enzyme purifucation, assay inhibitors and characterization / Nathaniel S. Russell and Keith D. Wilkinson -- Measuring ubiquitin conjugation in cells / Edward G. Mimnaugh and Leonard M. Neckers -- Assays for proteasome assembly and maturation / R. Jürgen Dohmen ... [et al.] --N-terminal ubiquitination / Aaron Ciechanover -- Quantitating defective ribosome products / Shu-Bing Qian, Jack R. Bennink, and Jonathan W. Yewdell -- Endoplasmic reticulum-associated protein quality control and degradation: screen for ERAD mutants after ethylmethane sulfonate mutagenesis / Antje Schäfer and Dieter H. Wolf -- Endoplasmic reticulum-associated protein quality control and degradation: genome wide screen for ERAD components / Antje Schäfer and Dieter H. Wolf -- Cystic fibrosis transmembrane conducatance regulator as a model substrate to study endoplasmic reticulum protein quality control in mammalian cells / J. Michael Younger ... [et al.] -- Aggresome formation / Michael J. Corboy, Philip J. Thomas, and W. Christian Wigley -- Detection of sumoylated proteins / Roland S. Hilgarth and Kevin D. Sarge -- Proteasome inhibitors in cancer therapy / Robert Z. Orlowski -- Parkinson disease: assays for the ubiquitin ligase activity of neural parkin / Michael G. Schlossmacher and Hideki Shimura.Small-molecule inhibitors of proteasome activity / Maria Gaczynska and Pawel A. Osmulski -- Purification of E1 and E1-like enzymes / Arthur L. Haas -- Assays for RING family ubiquitin ligases / Manabu Furukawa, Paul S. Andrews, and Yue Xiong -- Ubiquitin chain synthesis / Shahri Raasi and Cecile M. Pickart -- Purification of proteasomes, proteasome subcomplexes, and proteasome-associated proteins from budding yeast / David S. Leggett, Michael H. Glickman, and Daniel Finley -- Recognition and processing of misfolded proteins by PA700, the 19S regulatory complex of the 26S proteasome / Chang-Wei Liu ... [et al.] -- Cell-free assay for ubiquitin-independent proteasomal protein degradation / Chaim Kahana and Yuval Reiss --
  • Understanding DNA. 3rd ed. 2004, ScienceDirect
    An introduction to molecular biology for non-scientiest -- Why a helix? -- Different kinds of double helix -- Twisting and curving -- Curving in three dimensions -- DNA supercoiling -- The assembly of DNA into chromosomes -- Specific DNA-protein interactions -- Methods used to study the structure of DNA -- DNA in disease, diagnostics, and medicine -- Cytosine methylation and DNA epigenetics.
  • Viruses 2012, Springer
    "Viruses are now considered to play major roles in the evolution of life. Because they have genes that are not found in any cellular organism they seem to be remnants of early stages of life on earth. Besides their disease causing features and actions as genetic parasites viruses have lifestyles that are clearly symbiotic and even symbiogenetic. Increasing empirical data suggest that some viruses such as endogenous retroviruses and non-retroviral RNA viruses and even DNA viruses prefer cellular genomes as habitat. They determine genetic host (group) identity and genetic host features. Viruses and virus-related modules such as mobile genetic elements and other repeat sequences identified in intronic regions of host genomes play important roles in gene regulation and genetic content (re)arrangement. This book exemplifies some astonishing key features of viruses acting as essential agents of life."--Publisher.
  • WormBook NCBI Bookshelf
    "WormBook is a comprehensive online review of C. elegans biology, containing over 100 original, peer-reviewed chapters on a wide range of topics related to the biology of C. elegans and related nematodes; as well as WormMethods, a collection of laboratory methods and protocols useful for nematode researchers."
  • Xenopus protocols 2005, Springer Protocols
  • Yeast protocols. 2nd ed. 2005, Springer Protocols
    Basic investigations in saccharomyces cerevisiae / Brendan P.G. Curran and Virginia Bugeja -- Isolation of nucleic acids / Michelle Hanna and Wei Xiao -- Purification of yeast peroxisomes / Ben Distal and Astrid Kragt -- Isolation of yeast plasma membranes / Barry Panaretou and Peter Piper -- Isolation of yeast mitochondria / Chris Meisinger, Nikolaus Pfanner, and Kaye N. Truscott -- Extraction of yeast lipids / Roger Schneiter and Günther Daum -- Two-dimensional gel electrophoresis of total yeast proteins / Hélian Boucherie and Christelle Monribot-Espagne -- Pulsed field gel electrophoresis of budding yeast chromosomes / Laura Maringele and David Lydall -- Analysis of yeast lipids / Roger Schneiter and Günther Daum -- Yeast fluorescence microscopy / Jirí Hasek --Intracellular expression of recombinant antibody fluorescent protein fusions for localization of target antigens in schizosaccharomyces pombe / Michelle A. Alting-Mees ... [et al.] -- Yeast transformed by the LiAc/SS carrier DNA/PEG method / R. Daniel Gietz and Robin A. Woods -- Mutagenesis / Leslie Barbour, Michelle Hanna, and Wei Xiao -- Gene disruption in the budding yeast saccharomyces cerevisiae / Johannes H. Hegemann, Ulrich Güldener, and Gabriele J. Köhler -- Inducible degron and its application to creating conditional mutants / R. Jürgen Dohmen -- Synthetic lethal screen / Leslie Barbour and Wei Xiao -- Synthetic genetic array analysis in saccharomyces cerevisiae / Amy Hin Yan Tong and Charles Boone -- Two-dimensional agarose gel analysis of DNA replication intermediates / Alain T. Dandjinou ... [et al.] -- Chromatin assembly in a crude fraction from yeast cells / Karen M. Robinson and Michael C. Schultz -- Chromatin immunoprecipitation to study protein/DNA interactions in budding yeast / Elena Ezhkova and William P. Tansey --Isolation of yeast nuclei and micrococcal nuclease mapping of nucleosome positioning / Zhengjian Zhang and Joseph C. Reese -- Study of transcriptional regulation using a reporter gene assay / Yu Fu and Wei Xiao -- Assessing telomeric phenotypes / Catherine LeBel ... [et al.] -- Controlled expression of recombinant genes and preparation of cell-free extracts in yeast / Zhigang Wang -- Production of heterologous proteins in yeast with the aid of the Hsp150 Carrier / Marja Makarow ... [et al.] -- Yeast two-hybrid system screening / R. Daniel Gietz -- Import of precursor proteins into isolated yeast mitochondria / Nils Wiedemann, Nikolaus Pfanner, and Peter Rehling.
all 334 titles

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