Books by Subject
- ABCs of gene cloning. 2nd ed. — Drug-nucleic acid interactions (137)
- Ecological genomics : ecology and the evolution of genes and genomes — MicroRNA protocols. [1st ed.] (137)
- MicroRNA--basic science : from molecular biology to clinical practice — Principles of molecular medicine. 2nd ed. (137)
- Principles of virology. 3rd ed. — Yeast protocols. Third Edition. [3rd ed.] (135)
- 2006 SpringerDominic W.S. Wong.
- 2007 Springerby Paul S. Agutter and Denys N. Wheatley.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.
- 2011 Springer Protocolsedited by Richard O. Snyder, Philippe Moullier.Adeno-associated virus biology / Matthew D. Weitzman and R. Michael Linden -- Design and construction of functional AAV vectors / John T. Gray and Serge Zolotukhin -- AAV capsid structure and cell interactions / Mavis Agbandje-McKenna and Jürgen Kleinschmidt -- Exploring natural diversity of AAV for the design of vectors with novel properties / Guangping Gao, Li Zhong, and Olivier Danos -- Gene therapy in skeletal muscle mediated by adeno-associated virus vectors / Chunping Qiao ... [et al.] -- AAV mediated liver-directed gene therapy / Mark S. Sands -- Recombinant AAV delivery to the central nervous system / Olivier Bockstael ... [et al.] -- Adeno-associated virus mediated gene therapy for retinal degenerative diseases / Knut Steiger ... [et al.] -- Adeno-associated virus vector delivery to the heart / Lawrence T. Bish ... [et al.] -- Evaluation of the fate of rAAV genomes following in vivo administration / K. Reed Clark and Magalie Penaud-Budloo -- Measuring immune responses to recombinant AAV gene transfer / Ashley T. Martino ... [et al.] -- Modificaton and labeling of AAV vector particles / Hildegard Büning ... [et al.] -- AAV mediated gene targeting / Daniel G. Miller -- Preclinical study design for rAAV / Terence R. Flotte, Thomas J. Conlon, and Christian Mueller -- Biodistribution and shedding of AAV vectors / Caroline Le Guiner, Phillipe Moullier, and Valder R. Arruda -- Production and purification of recombinant adeno-associated vectors / Lijun Wang ... [et al.] -- rAAV vector product characterization and stability studies / Richard O. Snyder, Muriel Audit, and Joyce D. Francis -- rAAV human trial experience / Katherine A. High and Patrick Aubourg.
- 2012 SpringerCharles E. Samuel, editor.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.
- v. 1-2, 2006. Springer Protocolsedited by William S.M. Wold, Ann E. Tollefson.v. 1. Adenoviruses, ad vectors, quantitation, and animal models -- v. 2. Ad proteins and RNA, lifecycle and host interactions, and phylogenetics.
- 2010 CRCnetBASEeditor, Victor R. Preedy.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.
- 2007 SpringerKlaus Ley, editor.Also available: Print – 2007
- 2010 Springeredited by Simon Yona, Martin Stacey.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.Also available: Print – 2010
- 2011 Springer Protocolsedited by Jeffrey M. Gimble, Bruce A. Bunnell.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.
- 2007 Springeredited by Matthew A. Jenks, Paul M. Hasegawa and S. Mohan Jain.
- 2007 SpringerFebrizio d'Adda di Fagagna ... [et al.], editors ; edited under the auspices of the the European Institute of Oncology ... and the FIRC Institute of Molecular Oncolgy Foundation.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.Also available: Print – 2007
- 2008 Springer Protocolsedited by Michael Zachariou.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.
- 2015 Springer Protocolsedited by Senta Reichelt, Leibniz-Institut für Oberflächenmodifizierung, Leipzig, Germany.Affinity chromatography : a historical perspective -- Protein purification by amniosquarylium cyanine dye-affinity chromatography -- One-step purification of phosphinothricin acetyltransferase using reactive dye-affinity chromatography -- Antibody purification from human plasma by metal-chelated affinity membranes -- Specific recognition of supercoiled plasmid DNA by affinity chromatography using a synthetic aromatic ligand -- Cell affinity separations on microfluidic devices -- Aptamer-modified magnetic beads in affinity separation of proteins -- The Strep-tag system for one-step affinity purification of proteins from mammalian cell culture -- Robotic high-throughput purification of affinity-tagged recombinant proteins -- Macroporous silica particles derivatized for enhanced lectin affinity enrichment of glycoproteins -- Immobilized magnetic beads-based multi-target affinity selection coupled with HPLC-MS for screening active compounds from traditional Chinese medicine and natural products -- Mixed-bed affinity chromatography : principles and methods -- Preparation and characterization of fluorophenylboronic acid-functionalized affinity monolithic columns for the selective enrichment of cis-diol-containing biomolecules -- Introduction to macroporous cryogels -- Cryogels with affinity ligands as tools in protein purification -- Direct capture of His₆-tagged proteins using megaporous cryogels developed for metal-ion affinity chromatography -- Ni(II) chelated IDA functionalized poly(HEMA-GMA) cryogels for urease adsorption -- A novel chromatographic media : histidine-containing composite cryogels for HIgG separation from human serum -- Molecularity imprinted cryogels for human serum albumin depletion -- Interpenetrating polymer network composite cryogels with tailored porous morphology and sorption properties -- Analysis of drug-protein interactions by high-performance affinity chromatography : interactions of sulfonylurea drugs with normal and glycated human serum albumin -- Accurate protein-peptide titration experiments by nuclear magnetic resonance using low-volume samples -- Characterization of the binding strengths between boronic acids and cis-diol-containing biomolecules by affinity capillary electrophoresis -- Determination if the kinetic rate constant of cyclodextrin supramolecular systems by high-performance affinity chromatography -- Molecular modeling of the affinity chromatography of monoclonal antibodies.
- v. 1-2, 2006. Springer Protocolsedited by Kan Wang.
- 2015 Springer ProtocolsFulltext v. 2 (2015) Springer Protocolsedited by Kan Wang, Center for Plant Transformation, Plant Sciences Institute, and Department of Agronomy, Iowa State University, Ames, IA, USA.Volume 1. Gateway®-compatible plant transformation vectors /Mark A. Smedley and Wendy A. Harwood -- Brachypodium distachyon /Jennifer N. Bragg ... [et al.] -- Medicago truncatula transformation using cotyledonary explants /Elane Wright and Zeng-Yu Wang -- Medicago truncatula transformation using leaf explants /Viviane Cosson, Alexis Eschstruth , and Pascal Ratet -- Setaria viridis /Joyce Van Eck and Kerry Swartwood -- Barley (Hordeum vulgare L.) transformation using immature embryos /Cornelia Marthe, Jochen Kumlehn, and Goetz Hensel -- Barley (Hordeum vulgare L.) transformation using embryogenic pollen cultures /Ingrid Otto, Andrea Müller, and Jochen Kumlehn -- Maize (Zea mays L.) /Bronwyn Frame ... [et al.] -- Maize, tropical (Zea mays L.) /Shireen K. Assem -- Finger millet [Eleusine coracana (L.) Gaertn.] /Stanislaus Antony Ceasar and Savarimuthu Ignacimuthu -- Oat (Avena sativa L.) /Sebastian Gasparis and Anna Nadolska-Orczyk -- Rice, indica (Oryza sativa L.) /Yukoh Hiei, Yuji Ishida, and Toshihiko Komari -- Rice, japonica (Oryza sativa L.) /Marcy Main, Bronwyn Frame, and Kan Wang -- Sorghum (sorghum bicolor ) /Xiaomei Guo, Zhengxiang Ge, Shirley J. Sato, and Tom E. Clemente -- Wheat (Triticum aestivum L.) transformation using immature embryos /Yuji Ishida ... [et al.] -- Wheat (Triticum aestivum L.) transformation using mature embryos /Eva Medvecká and Wendy A. Harwood -- Alfalfa (Medicago sativa L.) /Chunxiang Fu ... [et al.] -- Clovers (Trifolium spp.) /Samira Rahimi-Ashtiani ... [et al.] -- Clover, red (Trifolium pratense) /Michael L. Sullivan and Kenneth H. Quesenberry -- Cowpea [Vigna unguiculata (L.) walp.] /Ratikanta Behura ... [et al.] -- Lentil (Lens culinaris medik) /Ufuk Celikkol Akcay, Meral Yücel, and Hüseyin Avni Öktem -- Soybean [Glycine max (L.) Merr.] /Diane Luth, Katey Warnberg, and Kan Wang -- Brassica oleracea and B. napus /Penny A. C. Hundleby née Sparrow and Judith A. Irwin -- Cucumber (Cucumis sativus L.) and kabocha squash (Cucurbita moschata Duch) /Yoshihiko Nanasato and Yutaka Tabei -- Pepper, chili (Capsicum annuum) /Jung Min ... [et al.] -- Pepper, sweet (Capsicum annuum) /Iris Heidmann and Kim Boutilier -- Sugar beet (Beta vulgaris L.) /Hiroyo Kagami ... [et al.] -- Tomato (Solanum lycopersicum) /Dora Garcia, Javier Narváez-Vásquez, and Martha L. Orozco-Cárdenas.
- 2008 Springer ProtocolsLaura E. Nagy, editor.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.
- 2010Brandon E. Johnson.Ion channels coordinate the movement of ions across biological membranes in response to a diversity of cellular signals to regulate most if not all aspects of physiology. The large-conductance Ca2+- and voltage-activated potassium (BK) channel is widely expressed across tissues and functions to repolarize action potentials, regulate smooth muscle tone and endocrine function, and tune auditory hair cells. In all tissues, BK channels provide a functional link between cytosolic Ca2+ and membrane excitation. Extensive alternate splicing of the slo-1 gene, encoding the BK channel, significantly diversifies channel function. We identified all twelve predicted BK channel splice variants expressed by the nematode Caenorhabditis elegans, and measured the Ca2+ and voltage dependence for each. Alternate exons encode portions of two regions of the cytoplasmic tail: the RCK domain, important for Ca2+ coordination, and an unstructured region, termed the C-linker. Using the patch clamp technique, we determined that alternate splicing across multiple sites diversifies activation kinetics and Ca2+ sensitivity by manipulating the functional interaction between the RCK domain and C-linker. We recovered two slo-1 alleles (pg34 and pg52) that contain point-mutations near an alternative splice site in the C-linker from a mutant screen. Using real-time PCR, we determined that both mutations change slo-1 splice variant expression profiles. The pg34 mutation encodes an A698T substitution, and the pg52 mutation is located in an intron. When heterologously expressed, the A698T mutation changes BK channel Ca2+ sensitivity in specific splice variant backgrounds by disrupting the functional connection between the C-linker and the RCK domain. Using in vivo electrophysiology, we determined that the pg34 mutation reduces but does not abolish BK channel function in C. elegans neurons. These results suggest that alternate splicing of slo-1 modulates the functional connection between the RCK domain and the C-linker of the BK channel to establish a proper balance between intracellular Ca2+ and membrane excitation in a variety of cell type and physiological conditions.
- 2006 SpringerPhilippe Jeanteur (ed.).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.
- 2010 Springer Protocolsedited by Erik D. Roberson.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.
- 2012 Springer Protocolsedited by Einar M. Sigurdsson, Miguel Calero, María Gasset.Rapid generation of dityrosine cross-linked A-[beta] oligomers via cu-redox cycling / Adam P. Gunn, Blaine R. Roberts, and Ashley I. Bush -- Application of photochemical cross-linking to the study of oligomerization of amyloidogenic proteins / Dahabada H.J. Lopes [and others] -- Preparation of stable amyloid b-protein oligomers of defined assembly order / Clark Rosensweig [and others] -- Purification and fibrillation of full-length recombinant PrP / Natallia Makarava and Ilia V. Baskakov -- Featuring amyloids with fourier transform infrared and circular dichroism spectroscopies / Miguel Calero and María Gasset -- Quasielastic light scattering study of amyloid b-protein fibrillogenesis / Aleksey Lomakin and David B. Teplow -- Conformations of microtubule-associated protein tau mapped by fluorescence resonance energy transfer / Sadasivam Jeganathan [and others] -- Measuring the kinetics of amyloid fibril elongation using quartz crystal microbalances / Alexander K. Buell, Christopher M. Dobson, and Mark E. Welland -- X-ray fibre diffraction studies of amyloid fibrils / Kyle L. Morris and Louise C. Serpell -- Structural characterization of prefibrillar intermediates and amyloid fibrils by small-angle x-ray scattering / Annette Eva Langkilde and Bente Vestergaard -- Atomic force fluorescence microscopy in the characterization of amyloid fibril assembly and oligomeric intermediates / Valeriy Ostapchenko, Maria Gasset, and Ilia V. Baskakov -- Investigating fibrillar aggregates of tau protein by atomic force microscopy / Susanne Wegmann, Daniel J. Muller, and Eckhard Mandelkow -- Structural studies of amyloids by quenched hydrogen-deuterium exchange by NMR / Marçal Vilar, Lei Wang, and Roland Riek -- Cyclic amplification of prion protein misfolding / Marcelo A. Barria, Dennisse Gonzalez-Romero, and Claudio Soto -- Search for amyloid-binding proteins by affinity chromatography / Miguel Calero, Agueda Rostagno, and Jorge Ghiso -- Establishing the links between A[beta] aggregation and cytotoxicity in vitro using biophysical approaches / Asad Jan and Hilal A. Lashuel -- Preparation of cultured human vascular cells / Ingvar H. Olafsson, Dadi Th. Vilhjalmsson, and Finnbogi R. Thormodsson -- Murine cerebrovascular cells as a cell culture model for cerebral amyloid angiopathy : isolation of smooth muscle and endothelial cells from mouse brain / Sebastien A. Gauthier [and others] -- In vitro assays measuring protection by proteins such as cystatin C of primary cortical neuronal and smooth muscle cells / Sebastien A. Gauthier [and others] -- Study of neurotoxic intracellular calcium signalling triggered by amyloids / Carlos Villalobos [and others] -- Bacterial amyloids / Yizhou Zhou [and others] -- Study of amyloids using yeast / Reed B. Wickner [and others] -- Cell-to-cell transmission of [alpha]-synuclein aggregates / Seung-Jae Lee [and others] -- Subcutaneous adipose tissue biopsy for amyloid protein studies / Per Westermark -- Analysis of s100 oligomers and amyloids / Hugo M. Botelho, Günter Fritz, and Cláudio M. Gomes -- S100A8/A9 amyloidosis in the ageing prostate : relating ex vivo and in vitro studies / Anna L. Gharibyan, Dina Raveh, and Ludmilla A. Morozova-Roche -- Isolation of amyloid by solubilization in water / Dadi Th. Vilhjalmsson, Indiana E. Ingolfsdottir, and Finnbogi R. Thormodsson -- Histological staining of amyloid and pre-amyloid peptides and proteins in mouse tissue / Hameetha B. Rajamohamedsait and Einar M. Sigurdsson -- Pentameric luminescent-conjugated oligothiophene for optical imaging of in vitro-formed amyloid fibrils and protein aggregates in tissue sections / K. Peter R. Nilsson, Mikael Lindgren, and Per Hammarström -- In vivo magnetic resonance imaging of amyloid-[beta] plaques in mice / Youssef Zaim Wadghiri [and others] -- Mouse model for scrapie : inoculation, clinical scoring, and histopathological techniques / Michele A. Di Bari, Romolo Nonno, and Umberto Agrimi -- Biochemical isolation of insoluble tau in transgenic mouse models of tauopathies / Carl Julien, Alexis Bretteville, and Emmanuel Planel -- Tissue processing prior to analysis of alzheimer's disease associated proteins and metabolites, including A[beta] / Stephen D. Schmidt, Ralph A. Nixon, and Paul M. Mathews -- A-[beta] measurement by enzyme-linked immunosorbent assay / Stephen D. Schmidt [and others] -- Cognitive and sensorimotor tasks for assessing functional impairments in mouse models of Alzheimer's Disease and related disorders / Allal Boutajangout [and others].
- Amyloid-beta inhibits E-S plasticity and LTP through inhibition of cannabinoid receptor 1-dependent synaptic disinhibition2010Adrienne Orr.Alzheimer's disease (AD) is a progressive neurodegenerative disorder affecting the elderly that is characterized by loss of short-term memory and cognitive decline. Studies in both human patients and animal models of AD point to over-accumulation of soluble oligomers of amyloid-beta peptide (Abeta) as a mediator of learning and memory impairments early in the disease (Rowan, Klyubin et al. 2005; Selkoe 2008). Support for Abeta's role in learning deficits comes from studies demonstrating impaired plasticity of synaptic inputs to neurons, as measured in the paradigm of long-term potentiation (LTP) of synaptic strength in hippocampal slices (Chen, Kagan et al. 2000; Freir, Holscher et al. 2001; Walsh, Klyubin et al. 2002; Wang, Pasternak et al. 2002; Townsend, Shankar et al. 2006), the prime candidate for the neuronal substrate of learning and memory behavior (Bliss and Collingridge 1993). Induced concurrently with synaptic LTP is an increase in the electrical coupling between the dendritic synaptic inputs and the soma, such that a greater proportion of the EPSP survives at the spike trigger zone, resulting in greater action potential output for a given EPSP. This potentiation of EPSP-spike coupling (E-S coupling) provides an additional boost to the efficacy of the EPSP on top of the potentiation (LTP) that occurs at the synapse (Bliss and Lomo 1973). While LTP of synaptic strength is an essential component of memory storage, in all models of learning, memory recall occurs only when spikes are evoked in the neurons participating in a representation. Thus E-S potentiation exerts control over the essential substrate of memory retrieval. Although LTP and E-S potentiation are mechanistically distinct processes, several features during the induction phase are shared. Studies have shown that Abeta impairs the induction, but not maintenance of LTP (Wang, Walsh et al. 2004; Townsend, Shankar et al. 2006), leaving the possibility that Abeta-mediated impairment to memory is not specific to LTP. Nevertheless, focus has centered on pathways central to LTP, while impairment to other forms of plasticity have not been explored. Here we show a mechanism by which Abeta peptides impairs post-tetanic suppression of inhibition, thereby inhibiting E-S potentiation. This impairment to E-S potentiation was occluded by GABAA-receptor, Cannabinoid 1 receptor (CB1R), and muscarinic acetylcholine receptor (mAChR), but not mGluR block. This suggests that the impairment is mediated by mAChR-initiated endocannbinoid signaling. Together, the results provide a mechanism to explain learning and memory impairments in early Alzheimer's disease.
- 2011 Springerby Rajan Katoch.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.
- 2012 Springer Protocolsedited by Beth Shapiro, Michael Hofreiter.Setting up an ancient DNA laboratory / Tara L. Fulton -- A phenol-chloroform protocol for extracting DNA from ancient samples / Ross Barnett and Greger Larson -- DNA extraction of ancient animal hard tissue samples via adsorption to silica particles / Nadin Rohland -- Case study : recovery of ancient nuclear DNA from toe pads of the extinct passenger pigeon / Tara L. Fulton, Stephen M. Wagner, and Beth Shapiro -- Extraction of DNA from paleofeces / Melanie Kuch and Hendrik Poinar -- DNA extraction from keratin and chitin / Paula F. Campos and Thomas M.P. Gilbert -- Case study : ancient sloth DNA recovered from hairs preserved in paleofeces / Andrew A. Clack, Ross D.E. MacPhee, and Hendrik N. Poinar -- Ancient DNA extraction from soils and sediments / James Haile -- DNA extraction from fossil eggshell / Charlotte L. Oskam and Michael Bunce -- Ancient DNA extraction from plants / Logan Kistler -- DNA extraction from formalin-fixed material / Paula F. Campos and Thomas M.P. Gilbert -- Case study : ancient DNA recovered from Pleistocene-age remains of a Florida armadillo / Brandon Letts and Beth Shapiro -- Nondestructive DNA extraction from museum specimens / Michael Hofreiter -- Case study : using a nondestructive DNA extraction method to generate mtDNA sequences from historical chimpanzee specimens / Elmira Mohandesan, Stefan Prost, and Michael Hofreiter -- PCR amplification, cloning, and sequencing of ancient DNA / Tara L. Fulton and Mathias Stiller -- Quantitative real-time PCR in aDNA research / Michael Bunce, Charlotte L. Oskam, and Morten E. Allentoft -- Multiplex PCR amplification of ancient DNA / Mathias Stiller and Tara L. Fulton -- Preparation of next-generation sequencing libraries from damaged DNA / Adrian W. Briggs and Patricia Heyn -- Generating barcoded libraries for multiplex high-throughput sequencing / Michael Knapp, Mathias Stiller, and Matthias Meyer -- Case study : targeted high-throughput sequencing of mitochondrial genomes from extinct cave bears via direct multiplex PCR sequencing (DMPS) / Mathias Stiller -- Target enrichment via DNA hybridization capture / Susanne Horn -- Case study : enrichment of ancient mitochondrial DNA by hybridization capture / Susanne Horn -- Analysis of high-throughput ancient DNA sequencing data / Martin Kircher -- Phylogenetic analysis of ancient DNA using BEAST / Simon Y.W. Ho.
- 2014 Springer Protocolsedited by Andreas Werner.Targeted small noncoding rna-directed gene activation in human cells -- Isolation of chromatoid bodies from mouse testis as a rich source of short RNAs -- Generation of endo-siRNAs in xenopus laevis oocytes -- Analysis of endo-siRNAs in drosophila -- Methods for studying the biological consequences of endo-siRNA deficiency in drosophila melanogaster -- Small RNA library cloning procedure for deep sequencing of specific endogenous siRNA classes in caenorhabditis elegans -- Assays for direct and indirect effects of c. Elegans endo-siRNAs -- Extraction and nonradioactive detection of small RNA molecules -- P19-mediated enrichment and detection of siRNAs -- Detection of small noncoding RNAs by in situ hybridization using probes of 2'-o-methyl RNA + LNA -- Enhanced detection of small RNAs using a nonradioactive approach -- Computing siRNA and piRNA overlap signatures -- Isolation of small interfering RNAs using viral suppressors of RNA interference -- Computational analysis, biochemical purification, and detection of tRNA-derived small RNA fragments -- Differential DNA methylation patterns in endo-siRNAs mediated silencing of LINE-1 retrotransposons.
- 2008 CRCnetBASEedited by Stanley T. Crooke.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.
- 2006 Springer Protocolsedited by Julio Salinas and Jose J. Sanchez-Serrano.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 --
- 2014 Springer Protocolsedited by Jose J. Sanchez-Serrano, Julio Salinas.1. Handling Arabidopsis plants: growth, preservation of seeds, transformation and genetic crosses / Luz Rivero, Randy Scholl, Nicholas Holomuzki, Deborah Crist, Erich Grotewold, and Jelena Brkljacic --2. Using Arabidopsis related model species (ARMS): growth, genetic transformation and comparative gnomics / Giorgia Batelli, Dong-Ha Oh, Matilde Paino D'Urzo, Francesco Orsini, Maheshi Dassanayake, Jian-Kang Zhu, Hans J. Bohnert, Ray A. Bressan and Albino Maggio -- 3. Growing Arabidopsis in vitro: cell suspensions, in vitro culture, and regeneration / Bronwyn J. Barkla, Rosario Vera-Estrella, and Omar Pantoja -- 4. Arabidopsis database and stock resources / Donghui Li, Kate Dreher, Emma Knee, Jelena Brkljacic, Erich Grotewold, Tanya Z. Berardini, Philippe Lamesch, Margarita Garcia-Hernandez, Leonore Reiser and Eva Huala -- 5. Bioinformatic tools in Arabidopsis research / Miguel de Lucas, Nicholas J. Provart, and Siobhan Brady -- 6. Exploiting natural variation in Arabidopsis / Johanna A. Molenaar and Joost J. B. Keurentjes -- 7. Grafting in Arabidopsis / Katherine Bainbridge, Tom Bennett, Peter Crisp, Ottoline Leyser, and Colin Turnbull -- 8. Agrobacterium tumefaciens mediated transient transformation of Arabidopsis thaliana leaves / Silvina Mangano, Cintia Daniela Gonzalez, and Silvana Petruccelli -- 9. iTilling: personalized mutation screening / Susan M. Bush and Patrick J. Krysan --10. Tailor Made Mutations in Arabidopsis Using Zinc-Finger Nucleases / Yiping Qi, Colby G. Starker, Feng Zhang, Nicholas J. Baltes, and Daniel F. Voytas -- 11. The Use of Artificial Micro RNA Technology to Control Gene Expression in Arabidopsis thaliana / Andrew L. Eamens, Marcus McHale, and Peter M. Waterhouse -- 12. Generation and Identification of Arabidopsis EMS Mutants / Li-Jia Qu and Gengi Qin --13. Generation and Identification of Arabidopsis T-DNA Insertion Mutants / Li-Jia Qu and Gengi Qin --14. Identification of EMS-induced Causal Mutations in Arabidopsis thaliana by Next-Generation Sequencing /Naoyuki Uchida, Tomoaki Sakamoto, Masao Tasaka, and Tetsuya Kurata -- 15. Arabidopsis Transformation with Large Bacterial Artificial Chromosomes /Jose M. Alonso and Anna N. Stepanova --16. Global DNA Methylation Analysis Using Methyl-Sensitive Amplification Polymorphism (MSAP) / Mahmoud W. Yaish, Mingsheng Peng, and Steven J. Rothstein --17. Next Generation Mapping of Genetic Mutations Using Bulk Population Sequencing / Ryan S. Austin, Steven P. Chatfield, Darrell Desveaux, and David S. Guttman --18. Chemical Fingerprinting of Arabidopsis Using Fourier-transform Infrared (FT-IR) Spectroscopic Approaches /András Gorzsás and Björn Sundberg -- 19. A Pipeline for ¹⁵N Metabolic Labeling and Phosphoproteome Analysis in Arabidopsis thaliana / Benjamin B. Minkoff, Heather L. Burch, and Michael R. Sussman -- 20. Gene Expression Profiling Using DNA Microarrays / Kyonoshin Maruyama, Kazuko Yamaguchi-Shinozaki, and Kazuo Shinozaki -- 21. Forward Chemical Genetic Screening /Hyunmo Choi, Jun-Young Kim, Young Tae Chang, and Hong Gil Nam -- 22. Highly-Reproducible ChIP-On-Chip Analysis to Identify Genome-Wide Protein Binding and Chromatin Status in Arabidopsis thaliana / Jong-Myong Kim, Taiko Kim To, Maho Tanaka, Takaho A. Endo, Akihiro Matsui, Junko Ishida, Fiona C. Robertson, Tetsuro Toyoda, and Motoaki Seki -- 23. Fluorescence Microscopy / Sebastien Peter, Klaus Harter, and Frank Schleifenbaum -- 24. Immunocytochemical Fluorescent In Situ Visualization of Proteins in Arabidopsis / Yohann Boutté and Markus Grebe --25. High Pressure Freezing and Freeze Substitution of Arabidopsis For Electron Microscopy / Jotham R. Austin, II. -- 26. Applications of Fluorescent Marker Proteins in Plant Cell Biology / Michael R. Blatt and Christopher Grefen -- 27. Flow Cytometry and Sorting in Arabidopsis / David W. Galbraith -- 28. Live Imaging of Arabidopsis Development / Daniel von Wangenheim, Gabor Daum, Jan U. Lohmann , Ernst K. Stelzer, and Alexis Maizel -- 29. Arabidopsis Organelle Isolation and Characterisation / Nicolas L. Taylor, Elke Ströher, and A. Harvey Millar -- 30. Analysis of Subcellular Metabolite Distributions within Arabidopsis thaliana Leaf Tissue: A Primer for Subcellular Metabolomics / Stephan Krueger, Dirk Steinhauser, Jan Lisec, and Patrick Giavalisco -- 31. Hormone Profiling --Gaetan Glauser, Armelle Vallat, and Dirk Balmer -- 32. Purification of Protein Complexes and Characterization of Protein-Protein Interactions / Kirby N. Swatek, Chris B. Lee, and Jay J. Thelen -- 33. Protein Fragment Bimolecular Fluorescence Complementation Analysis for the In vivo Study of Protein-Protein Interactions and Cellular Protein Complex Localizations / Rainer Waadt, Kathrin Schlückling, Julian I. Schroeder, and Jörg Kudla -- 34. The Split Ubiquitin System for the Analysis of Three-Component Interactions Christopher Grefen -- 35. RNA-Binding Protein Immunoprecipitation from Whole Cell Extracts / Tino Köster and Dorothee Staiger -- 36. High Throughput Analysis of Protein-DNA Binding Affinity / José M. Franco-Zorrilla and Roberto Solano.
- 2014 Springer Protocolsedited by Shunichi Shiozawa.Intravital Multiphoton Microscopy for Dissecting Cellular Dynamics in Arthritic Inflammation and Bone Destruction -- Monitoring Multifunctionality of Immune-Exhausted CD8 T in Cancer Patients -- Characterization of Innate Immune Signalings Stimulated by Ligands for Pattern Recognition Receptors -- Principled for the Use of in vivo Transgene Techniques: Overview and an Introductory Practical Guide for the Selection of Tetracycline-Controlled Transgenic Mice -- Unraveling Autoimmunity with the Adoptive Transfer of T Cells from TCR-Transgenic Mice -- In Vivo Cell Transfer Assay to Detect Autoreactive T Cell Subsets -- Characterization of microRNAs and Their Targets -- Studies on the T Cell Receptor (TCR) Revision of Autoantibody-Inducing CD4T (aiCD4 T) Cell -- Basic Techniques for Studies of iNKT Cells and MAIT Cells -- Induction of de novo Autoimmune Disease in Normal Mice Upon Repeated Immunization with Antigen -- Mouse Models of Experimental Dermal Fibrosis: The Bleomycin-Induced Dermal Fibrosis -- Screening for Novel Serum Biomarker for Monitoring Disease Activity in Rheumatoid Arthritis Using iTRAQ Technology Based Quantitative Proteomic Approach -- Genome-Wide Genetic Study in Autoimmune Disease Prone Mice -- Bayesian Systems-Based Genetic Association Analysis with Effect Strength Estimation and Omic Wide Interpretation: A Case Study in Rheumatoid Arthritis -- Sample Processing, Protocol and Statistical Analysis of the Time of Flight Secondary Ion Mass Spectrometry (ToF-SIMS) of Protein, Cell and Tissue Samples -- Label-Free Imaging of Adipogenesis by Coherent Anti-Stokes Raman Scattering Microscopy.
- 2011 Springer Protocolsedited by Pier Carlo Braga, Davide Ricci.How the atomic force microscope works / Bruno Torre, Davide Ricci, and Pier Carlo Braga -- Measurement methods in atomic force microscopy / Bruno Torre [and others] -- Recognizing and avoiding artifacts in atomic force microscopy imaging / Claudio Canale [and others] -- Imaging the spatial orientation of subunits within membrane receptors by atomic force microscopy / Stewart M. Carnally, J. Michael Edwardson, and Nelson P. Barrera -- High resolution imaging of immunoglobulin G antibodies and other biomolecules using amplitude modulation atomic force microscopy in air / Sergio Santos and Neil H. Thomson -- Atomic force microscopy of ex vivo amyloid fibrils / Claudio Canale, Annalisa Relini, and Alessandra Gliozzi -- Studying collagen self-assembly by time-lapse high-resolution atomic force microscopy / Clemens M. Franz and Daniel J. Muller -- Atomic force microscopy imaging of human metaphase chromosomes in liquid / Osamu Hoshi and Tatsuo Ushiki -- Atomic force microscopy of proteasome assemblies / Maria Gaczynska and Pawel A. Osmulski -- Atomic force microscopy of isolated mitochondria / Bradley E. Layton and M. Brent Boyd -- Imaging and interrogating native membrane proteins using the atomic force microscope / Andreas Engel -- Atomic force microscopy investigation of viruses / Alexander McPherson and Yurii G. Kuznetsov -- Determination of the kinetic on- and off-rate of single virus-cell interactions / Christian Rankl [and others] -- Atomic force microscopy as a tool for the study of the ultrastructure of trypanosomatid parasites / Wanderley de Souza [and others] -- Normal and pathological erythrocytes studied by atomic force microscopy / Andreas Ebner, Hermann Schillers, and Peter Hinterdorfer -- Growth cones of living neurons probed by the atomic force microscope / Davide Ricci, Massimo Grattarola, and Mariateresa Tedesco -- Highlights on ultrastructural pathology of human sperm / Narahari V. Joshi, Ibis Cruz, and Jesus A. Osuna -- High-speed atomic force microscopy and biomolecular processes / Takayuki Uchihashi and Toshio Ando -- Atomic force microscopy in mechanobiology : measuring microelastic heterogeneity of living cells / Evren U. Azeloglu and Kevin D. Costa -- Force-clamp measurements of receptor-ligand interactions / Felix Rico, Calvin Chu, and Vincent T. Moy -- Measuring cell adhesion forces : theory and principles / Martin Benoit and Christine Selhuber-Unkel -- Nanoscale investigation on E. coli adhesion to modified silicone surfaces / Ting Cao [and others] -- Imaging bacterial shape, surface, and appendages before and after treatment with antibiotics / Pier Carlo Braga and Davide Ricci -- Thymol-induced alterations in Candida albicans imaged by atomic force microscopy / Pier Carlo Braga and Davide Ricci -- Atomic force microscope-enabled studies of integrin-extracellular matrix interactions in vascular smooth muscle and endothelial cells / Zhe Sun and Gerald A. Meininger -- Atomic force microscopy studies on circular DNA structural changes by vincristine and aspirin / Zhongdang Xiao [and others] -- Combined atomic force microscopy and fluorescence microscopy / Miklos S.Z. Kellermayer -- Chemical modifications of atomic force microscopy tips / Regis Barattin and Normand Voyer -- Atomic force microscopy as nanorobot / Ning Xi [and others].
- 2008 Springer Protocolsedited by Robert J. McMahon.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.
- 2007James D. Watson.From a living legend--James D. Watson, who shared the Nobel Prize for revealing the structure of DNA--comes a personal account of the making of a scientist. Watson shares the less revolutionary secrets he has found to getting along and getting ahead in a competitive world. Each phase of his experience yields age-specific practical advice. A believer in the intellectual promise of youth, Watson offers pointers to beginning scientists about choosing the projects that will shape their careers, the supreme importance of collegiality, and dealing with competitors within the same institution, even one who is a former mentor. Later he addresses the role and needs of science at large universities. Scorning political correctness, this irreverent romp through Watson's life and learning is a guide to anyone plotting a career in science (or most anything else), addressed both to the next generation and those who are entrusted with their minds.--From publisher description.
- 2011Brenda A. Wilson, Abigail A. Salyers, Dixie D. Whitt, Malcolm E. Winkler.The power of bacteria -- Skin and mucosa : the first lines of defense against bacterial infections -- The innate immune system : always on guard -- The second line of defense : antibodies and cytotoxic T cells -- The normal human microbiota -- Microbes and disease : establishing a connection -- Mechanisms of genetic modification and exchange : role in pathogen evolution -- Identification of virulence factors : measuring infectivity and virulence -- Identification of virulence factors : molecular approaches for bacterial factors -- Identification of virulence factors : molecular approaches for host factors -- Bacterial strategies for evading or surviving host defense systems -- Toxins and other toxic virulence factors -- Delivery of virulence factors -- Virulence regulation -- Antimicrobial compounds -- How bacteria become resistant to antibiotics -- Vaccination : an underappreciated component of the modern medical armamentarium -- The gram-positive opportunistic pathogens -- The gram-negative opportunistic pathogens and emerging pathogens -- Biosecurity : the changing roles of microbiologists in an age of bioterrorism and emerging diseases.
- 2008 Springer Protocolsedited by Frank R. DeLeo and Michael Otto.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.
- 2008 SpringerWalid El Sharoud, editor.
- 2009 Springeredited by Philip T. Cagle and Timothy Craig Allen.
- 2012Sergio Bacallado de Lara.A host of sequential models in probability and statistics are characterized by time reversibility, from Markov chain Monte Carlo samplers to queueing networks. In physics, this property arises naturally from Hamiltonian mechanics. Molecular dynamics simulations are computer experiments which approximate classical mechanics in a system of interacting particles; in consequence, they are frequently reversible. Recent technical progress has made it possible to investigate the dynamics of biological macromolecules in silico using molecular dynamics simulations. An active area of research within this field is concerned with modeling the output of a simulation stochastically. This dissertation deals with the problem of incorporating knowledge of reversibility into the estimation and testing of stochastic models. We define a range of Bayesian inference algorithms, which are motivated by specific problems in the analysis of molecular dynamics simulations.
- 2015 SpringerAbhijit Chakrabarti.Consists of critical reviews and original research papers from the 2014 International Symposium on the "Biochemical Role of Eukaryotic Cell Surface Macromolecules". Topics covered include: · neurochemical and biochemical analysis of cell surface glycoconjugates · membrane skeletal organization · GPCRs and other receptors · biophysical approaches to study membrane interactions · glycoconjugate metabolism · dysregulation · molecular mechanisms involved in cell-cell and cell-matrix interaction · glycans in infectious and neurological diseases · cancer and glycosyltransferases as drug targets.Also available: Print – 2015
- 2012 SpringerPerumana R. Sudhakaran, Avadhesha Surolia, editors.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.Also available: Print – 2012
- 2007 CRCnetBASERoger L. Lundblad.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.
- 2006by Jean-Michel Claverie and Cedric Notredame.Introduction -- PART I: GETTING STARTED IN BIOINFORMATICS: Finding out what bioinformatics can do for you -- How most people use bioinformatics -- PART II: A SURVIVAL GUIDE TO BIOINFORMATICS: Using nucleotide sequence databases -- Using protein and specialized sequence databases -- Working with a single DNA sequence -- Working with a single protein sequence -- PART III: BECOMING A PRO IN SEQUENCE ANALYSIS: Similarity searches on sequence databases -- Comparing two sequences -- Building a multiple sequence alignment -- Editing and publishing alignments -- PART IV: BECOMING A SPECIALIST: ADVANCED BIOINFORMATICS TECHNIQUES: Working with protein 3-D structures -- Working with RNA -- Building phytogenetic trees -- PART V: THE PART OF TENS: The ten (okay, twelve) commandments for using servers -- Some useful bioinformatics resources.
- 2006Robert G. McKinnell, Ralph E. Parchment, Alan O. Perantoni, Ivan Damjanov, G. Barry Pierce.The pathology of cancer / G. Barry Pierce and Ivan Damjanov -- Invasion and metastasis / Robert G. McKinnell -- Carcinogenesis / Alan O. Perantoni -- Genetics and heredity / Robert G. McKinnell -- Cancer-associated genes / Alan O. Perantoni -- Cancer in nonhuman organisms / Robert G. McKinnell -- Epidemiology / Robert G. McKinnell -- Lifestyle: is there anything more important? / Robert G. McKinnell -- The stem cell basis of cancer treatment: concepts and clinical outcomes / Ralph E. Parchment -- Oncology: the difficult task of eradicating caricatures of normal tissue renewal in the human patient / Ralph E. Parchment.
- 2010 Springer Protocolsedited by Ali Khademhosseini, Kahp-Yang Suh, Mohammed Zourob.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
- 2013 Springeredited by C. Yan Cheng.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.].Also available: Print – 2013
- 2009 SpringerRyozo Nagai, Scott L. Friedman, Masato Kasuga, editors.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.
- 2011 ScienceDirectedited by James C. Whisstock and Phillip I. Bird.Also available: Print – 2011
- 2009 SpringerDov Zipori.
- 2008. SpringerChristoph W. Turck, editor.
- Biomedical applications of peptide-, glyco- and glycopeptide dendrimers, and analogous dendrimeric structures2012 SpringerJaroslav Šebestík, Milan Reiniš, Jan Ježek.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. .
- 2012 Springer Protocolsedited by Luca Monticelli, Emppu Salonen.Ab Initio, density functional theory, and semi-empirical calculations / Mikael P. Johansson, Ville R.I. Kaila, and Dage Sundholm -- Ab Initio molecular dynamics / Kari Laasonen -- Introduction to QM/MM simulations / Gerrit Groenhof -- Computational enzymology / Alessio Lodola and Adrian J. Mulholland -- QM and QM/MM simulations of proteins / Thomas Steinbrecher and Marcus Elstner -- Classical molecular dynamics in a nutshell / Susanna Hug -- Enhanced sampling algorithms / Ayori Mitsutake, Yoshiharu Mori, and Yuko Okamoto -- Force fields for classical molecular dynamics / Luca Monticelli and D. Peter Tieleman -- Polarizable force fields / Hanne S. Antila and Emppu Salonen -- Electrostatics interactions in classical simulations / G. Andres Cisneros, Volodymyr Babin, and Celeste Sagui -- Introduction to best practices in free energy calculations / Michael R. Shirts and David L. Mobley -- Recipes for free energy calculations in biomolecular systems / Mahmoud Moradi [and others] -- Molecular docking methodologies / Andrea Bortolato [and others] -- Simulation studies of the mechanism of membrane transporters / Giray Enkavi [and others] -- Molecular dynamics simulations of lipid bilayers : simple recipe of how to do it / Hector Martinez-Seara and Tomasz Rog -- Simulations of lipid monolayers / Svetlana Baoukina and D. Peter Tieleman -- Simulating DNA by molecular dynamics : aims, methods, and validation / Nicolas Foloppe, Marc Gueroult, and Brigitte Hartmann -- Simulation of carbohydrates, from molecular docking to dynamics in water / Nicolas Sapay, Alessandra Nurisso, and Anne Imberty -- Systematic methods for structurally consistent coarse-grained models / W.G. Noid -- Martini coarse-grained force field / Xavier Periole and Siewert-Jan Marrink -- Multiscale molecular modeling / Matej Praprotnik and Luigi Delle Site -- Coarse-grained models for protein folding and aggregation / Philippe Derreumaux -- Elastic network models : theoretical and empirical foundations / Yves-Henri Sanejouand -- Introduction to dissipative particle dynamics / Zhong-Yuan Lu and Yong-Lei Wang -- Multiscale molecular dynamics simulations of membrane proteins / Syma Khalid and Peter J. Bond -- Vesicles and vesicle fusion : coarse-grained simulations / Julian C. Shillcock.
- 2012 CRCnetBASEeditor, V. K. Gupta ; co-editor, M. Ayyachamy.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.].
- 2011 Springer Protocolsedited by Sukriti Nag.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.
- 2006 MyiLibrary[edited by] Martine J. Piccart ... [et al.].
- 2015 Springer Protocolsedited by David Biron, Gal Haspel.Library construction for mutation identification by whole-genome sequencing / Harold E. Smith -- Fundamentals of comparative genome analysis in caenorhabditis nematodes / Eric S. Haag and Cristel G. Thomas -- Genetic methods for cellular manipulations in C. elegans / Menachem Katz -- Fusion PCR method for expressing genetic tools in C. elegans / Yifat Eliezer and Alon Zaslaver -- Transposon-assisted genetic engineering with Mos1- mediated single-copy insertion (MosSCI) / Christian Frøkjær-Jensen -- Creating genome modifications in C. elegans using the CRISPR/Cas9 system / John A. Calarco and Ari E. Friedland -- Observing and quantifying fluorescent reporters / Michael Hendricks -- Microbial rhodopsin optogenetic tools : application for analyses of synaptic transmission and of neuronal network activity in behavior / Caspar Glock, Jatin Nagpal, and Alexander Gottschalk -- Simultaneous optogenetic stimulation of individual pharyngeal neurons and monitoring of feeding behavior in intact C. elegans / Nicholas F. Trojanowski and Christopher Fang-Yen -- High-pressure freeze and freeze substitution electron microscopy in C. elegans / Laura Manning and Janet Richmond -- Electron tomography methods for C. elegans / David H. Hall and William J. Rice -- Microfluidic devices for behavioral analysis, microscopy, and neuronal imaging in Caenorhabditis elegans / Ross C. Lagoy and Dirk R. Albrecht -- Tracking single C. elegans using a USB microscope on a motorized stage / Eviatar I. Yemini and André E. X. Brown -- Imaging system for C. elegans behavior / Matthew A. Churgin and Christopher Fang-Yen -- Method for obtaining large populations of synchronized Caenorhabditis elegans dauer larvae / Maria C. Ow and Sarah E. Hall -- Sampling and isolation of C. elegans from the natural habitat / Nausicaa Poullet and Christian Braendle -- Primer on prototyping / Dylan Lynch and David Biron -- Primer on quantitative modeling / Iulia Neagu and Erel Levine.
- 2006 Springer Protocolsedited by Kevin Strange.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.
- edited by Gerard Marriott.Also available: Print – 1998
- Calculations for molecular biology and biotechnology : a guide to mathematics in the laboratory. 2nd ed.2010 ScienceDirectFrank H. Stephenson.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.
- 2014 CRCnetBASEedited by Kasirajan Ayyanathan, PhD.
- Cancer-- principles & practice of oncology. Primer of the molecular biology of cancer. Second edition [2nd ed.].2015 Ovideditors, Vincent T. DeVita, Jr, Theodore S. Lawrence, Steven A. Rosenberg.
- 2009 Springer Protocolsedited by Ronald L. Cihlar and Richard A. Calderone.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.
- 2008 Springer Protocolsedited by Philippe Schmitt-Kopplin.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.
- 2013 Springer Protocolsedited by Nicola Volpi and Francesca Maccari.Recent advances in capillary electrophoresis-based proteomic techniques for biomarker discovery / Chenchen Wang, Xueping Fang, and Cheng S. Lee -- Capillary electrophoresis-mass spectrometry of carbohydrates / Joseph Zaia -- Approaches to enhancing the sensitivity of carbohydrate separations in capillary electrophoresis / M.C. Breadmore -- Determination of monosaccharides derivatized with 2-aminobenzoic acid by capillary electrophoresis / Mitsuru Abo, Li-ping He, Kae Sato and Akira Okubo -- Determination of mono-, di-, and oligosaccharides by capillary electrophoresis with capacitively coupled contactless conductivity detection / Claudimir Lucio do Lago, Thiago Nogueira, Lucas Blanes and Renata Mayumi Saito -- Separation of chitooligosaccharides in acidic solution by capillary electrophoresis / Toshiaki Hattori, Nobuhiro Anraku, and Ryo Kato -- Capillary electrophoresis for the analysis of glycosaminoglycan-derived disaccharides / Yuqing Chang, Bo Yang, Amanda Weyers and Robert J. Linhardt -- High-throughput capillary electrophoresis-mass spectrometry : from analysis of amino acids to analysis of protein complexes / Mehdi Moini -- Separation of amino acids by capillary electrophoresis with light-emitting diode-induced fluorescence in the presence of electroosmotic flow / Ming-Mu Hsieh and Po-Ling Chang -- Quantification of arginine and dimethylated arginines in human plasma by field-amplified sample injection capillary electrophoresis UV detection / Angelo Zinellu, Salvatore Sotgia, Luca Deianna and Ciriaco Carru -- Capillary electrophoresis-mass spectrometry for peptide analysis : target-based approaches and proteomics/peptidomics strategies / Carolina Simó, Alejandro Cifuentes, and Václav Kašička -- High resolution proteome/peptidome analysis of body fluids by capillary electrophoresis coupled with MS / Amaya Albalat, Vasiliki Bitsika, Petra Zurbig, Justyna Siwy and William Mullen -- Contribution of CE to the analysis of protein or peptide biomarkers / Kiarach Mesbah, Romain Verpillot, Franc̦ois de l'Escaille, Jean Bernard Falmagne and Myriam Taverna -- Highly charged polyelectrolyte coatings to prevent adsorption during protein and peptide analysis in capillary electrophoresis / Reine Nehmé and Catherine Perrin -- Capillary electrophoresis with laser-induced fluorescence detection of proteins from two types of complex sample matrices : food and biological fluids / Raul Garrido-Medina, Angel Puerta, Cristina Pelaez-Lorenzo, Zuly Rivera-Monroy, Andras Guttman, Jose Carlos Diez-Masa and Mercedes de Frutos -- Automated capillary electrophoresis in the screening for hemoglobinopathies / Frédéric Cotton, Fleur Wolff, and Béatrice Gulbis -- Protein fingerprinting of Staphylococcus aureus by capillary electrophoresis with on-capillary derivatization and laser-induced fluorescence detection / Cristina Pelaez-Lorenzo, Maria Teresa Veledo, Ramon Gonzales, Mercedes de Frutos and Jose Carlos Diez-Masa -- Capillary electrophoresis of seed storage proteins : the separation and identification of microheterogeneous rice glutelin subunits / Tomoyuki Katsube-Tanaka -- Evaluating amyloid beta (A[beta]) 1-40 degradation by capillary electrophoresis / Benjamin J. Alper and Walter K. Schmidt -- Capillary electrophoresis for protein profiling of the dimorphic, pathogenic fungus, penicillium marneffei / Julie M. Chandler, Heather R. Trenary, Gary R. Walker and Chester R. Cooper -- Capillary electrophoretic enzyme assays / Gerhard K.E. Scriba, Hans Abromeit, Martina Hense and Yi Fan -- A methodology for detection and quantification of esterase activity / Ana L. Simplício, Ana S. Coroadinha, John F. Gilmer and Joana Lamego -- Enzyme inhibitor screening by CE with and on-column immobilized enzyme microreactor created by an ionic binding technique / Chao Liu, Qianqian Zhang, and Jingwu Kang -- Fluorescent lipids as probes for sphingosine kinase activity by capillary electrophoresis / Philip M. Yangyuoru, Latanya Hammonds-Odie and Simon M. Mwongela -- Assessment of DNA damage by micellar electrokinetic chromatography / Paolo Fattorini, Giorgio Marrubini, Pierangela Grignani, Solange Sorc̦aburu-Cigliero and Carlo Previderé.
- 2012 Springer Protocolsedited by Yann Chevolot.Recent advances and future challenges in glycan microarray technology / José L. de Paz and Peter H. Seeberger -- Chemical synthesis of carbohydrates and their surface immobilization : a brief introduction / Daniel B. Werz -- General consideration on sialic acid chemistry / Hongzhi Cao and Xi Chen -- Synthesis of azido-functionalized carbohydrates for the design of glycoconjugates / Sami Cecioni [and others] -- Polypyrrole-oligosaccharide microarray for the measurement of biomolecular interactions by surface plasmon resonance imaging / Julia Bartoli, André Roget, and Thierry Livache -- Glycosylated self-assembled monolayers for arrays and surface analysis / Fang Cheng and Daniel M. Ratner -- Carbohydrate microarrays for enzymatic reactions and quantification of binding affinities for glycan-protein interactions / Myung-Ryul Lee, Sungjin Park, and Injae Shin -- Neoglycolipid-based oligosaccharide microarray system : preparation of NGLs and their noncovalent immobilization on nitrocellulose-coated glass slides for microarray analyses / Yan Liu [and others] -- Preparation of a mannose-6-phosphate glycan microarray through fluorescent derivatization, phosphorylation, and immobilization of natural high-mannose N-glycans and application in ligand identification of P-type lectins / Xuezheng Song [and others] -- Production of fluorous-based microarrays with uncharged carbohydrates / Sahana K. Nagapayya and Nicola L.B. Pohl -- General procedure for the synthesis of neoglycoproteins and immobilization on epoxide-modified glass slides / Yalong Zhang and Jeffrey C. Gildersleeve -- Immobilization of polyacrylamide-based glycoconjugates on solid phase in immunosorbent assays / Oxana E. Galanina [and others] -- Surface plasmon resonance imaging analysis of protein binding to a sialoside-based carbohydrate microarray / Matthew J. Linman [and others] -- Glycoarray by DNA-directed immobilization / Franc̦ois Morvan [and others] -- Fabrication of carbohydrate surfaces by using non-derivatised oligosaccharides / Jonathan Popplewell [and others] -- Polysaccharide microarrays : application to the identification of heparan sulphate mimetics / Julien Dheur [and others] -- Carbohydrate antigen microarrays / Denong Wang -- Probing virus-glycan interactions using glycan microarrays / Jamie Heimburg-Molinaro [and others] -- MALDI-ToF MS analysis of glycosyltransferase activities on gold surface arrays / Nicolas Laurent [and others] -- Microarray technology using glycans extracted from natural sources for serum antibody fluorescent detection / Emanuela Lonardi [and others] -- Studying modification of aminoglycoside antibiotics by resistance-causing enzymes via microarray / Matthew D. Disney -- Microarray method for the rapid detection of glycosaminoglycan-protein interactions / Claude J. Rogers and Linda C. Hsieh-Wilson -- Neoglycolipid-based "designer" oligosaccharide microarrays to define [beta]-glucan ligands for Dectin-1 / Angelina S. Palma [and others] -- Measurement of antibodies to pneumococcal polysaccharides with luminex xMAP microsphere-based liquid arrays / Jerry W. Pickering and Harry R. Hill -- Carbohydrate microarrays in 96-well polystyrene microtiter plates / Jean-Philippe Ebran, Nabil Dendane, and Oleg Melnyk -- Photoimmobilization of saccharides / Gregory T. Carroll and Denong Wang -- Microwave-assisted method for fabrication of carbohydrate cluster microarrays on 3-dimensional hydrazide-dendrimer substrate / Xichun Zhou, Jian Zhang, and Denong Wang -- Combinatorial glycoarray / Simon Rinaldi, Kathryn M. Brennan, and Hugh J. Willison.
- 2014 Springer Protocolsedited by Milica Radisic, Lauren D. Black III.Second generation codon optimized minicircle (CoMiC) for nonviral reprogramming of human adult fibroblasts / Sebastian Diecke ... [and 3 others] -- Scalable cardiac differentiation of human pluripotent stem cells as microwell-generated, size controlled three-dimensional aggregates / Celine L. Bauwens and Mark D. Ungrin -- Preparation and characterization of circulating angiogenic cells for tissue engineering applications / Aleksandra Ostojic ... [and 4 others] -- Isolation and expansion of C-kit-positive cardiac progenitor cells by magnetic cell sorting / Kristin M. French and Michael E. Davis -- Synthesis of aliphatic polyester hydrogel for cardiac tissue engineering / Sanjiv Dhingra, Richard D. Weisel, and Ren-Ke Li -- Fabrication of PEGylated fibrinogen : a versatile injectable hydrogel biomaterial / Iris Mironi-Harpaz, Alexandra Berdichevski, and Dror Seliktar -- Natural cardiac extracellular matrix hydrogels for cultivation of human stem cell-derived cardiomyocytes / Donald O. Freytes ... [and 4 others] -- Magnetically actuated alginate scaffold : a novel platform for promoting tissue organization and vascularization / Yulia Sapir ... [and 3 others.] -- Shrink-induced biomimetic wrinkled substrates for functional cardiac cell alignment and culture / Nicole Mendoza ... [and 4 others] -- Injectable ECM scaffolds for cardiac repair / Todd D. Johnson, Rebecca L. Braden, and Karen L. Christman -- Generation of strip-format fibrin-based engineered heart tissue (EHT) / Sebastian Schaaf ... [and 5 others.] -- Cell tri-culture for cardiac vascularization / Ayelet Lesman, Lior Gepstein, and Shulamit Levenberg -- Cell sheet technology for cardiac tissue engineering / Yuji Haraguchi ... [and 8 others] -- Design and fabrication of biological wires / Jason W. Miklas ... [and 3 others] -- Collagen-based engineered heart muscle / Malte Tiburcy ... [and 3 others] -- Creation of a bioreactor for the application of variable amplitude mechanical stimulation of fibrin gel-based engineered cardiac tissue / Kathy Y. Morgan and Lauren D. Black III -- Preparation of acellular myocardial scaffolds with well- preserved cardiomyocyte lacunae, and method for applying mechanical and electrical simulation to tissue construct / Bo Wang ... [and 3 others] -- Patch-clamp technique in ESC-derived cardiomyocytes / Jie Liu and Peter H. Backx -- Optogenetic control of cardiomyocytes via viral delivery / Christina M. Ambrosi and Emilia Entcheva -- Methods for assessing the electromechanical integration of human pluripotent stem cell-derived cardiomyocyte grafts / Wei-Zhong Zhu ... [and 3 others] -- Quantifying electrical interactions between cardiomyocytes and other cells in micropatterned cell pairs / Hung Nguyen ... [and 4 others].
- v. 1-2, 2006. Springer Protocolsedited by Qing K. Wang.v. 1. Genetics -- v. 2. Molecular medicine.
- 2016 SpringerClaudia Stange.Carotenoid distribution in nature -- Biosynthesis of carotenoids in plants: enzymes and color -- Structures and analysis of carotenoid molecules -- Carotenoids and photosynthesis -- Regulation of carotenoid biosynthesis in photosynthetic organs -- Regulation of carotenoid biosynthesis during fruit development -- Carotenoid biosynthesis in Daucus carota -- Carotenoids in microalgae -- Apocarotenoids : a new carotenoid-derived pathway -- Plastids and carotenoid accumulation -- Evidence of epigenetic mechanisms affecting carotenoids -- Manipulation of carotenoid content in plants to improve human health -- Modern breeding and biotechnological approaches to enhance carotenoid accumulation in seeds -- Carotenoids as a source of antioxidants in the diet -- Carotenoids in adipose tissue biology and obesity -- Absorption of carotenoids and mechanisms involved in their health-related properties.
- 2014 SpringerChristian Behl, Christine Ziegler.Aging and cell aging : an introduction -- Cell cycle : the life cycle of a cell -- Theories and mechanisms of aging -- Selected age-related disorders.
- 2007 SpringerRalph Bock (ed.).
- 2009 ClinicalKeyedited by Raymond R. Tubbs, Mark H. Stoler.This volume in the Foundations in Diagnostic Pathology Series packs today's most essential cell and tissue base molecular pathology into a compact, high-yield format! It focuses on the state of the art in practical validated molecular diagnostics as applied across the fields of surgical pathology and cytology. With an emphasis on current, clinically valid, and diagnostically important applications today and in the near future, you can be assured you're getting the most up-to-date, authoritative coverage available. Its pragmatic, well-organized approach, nearly 250 full-color illustrations, and at-a-glance boxes and tables make the information you need easy to access. Practical and affordable, this resource is ideal for study and review as well as everyday clinical practice! Offers detailed discussions on today's technologies to help you select the best test for case evaluation. Presents recognized molecular pathologists who convey the most current information, keeping you on the cusp of your field. Features nearly 250 full-color illustrations that present important pathologic features, enabling you to form a differential diagnosis and compare your findings with actual cases. Uses a consistent, user-friendly format, including at-a-glance boxes and tables for easy reference.
- 2014 Springer Protocolsedited by Eishi Noguchi and Mariana C. Gadaleta.Cell cycle-regulated transcription : effectively using a genomics toolbox / Sara L. Bristow, Adam R. Leman, and Steven B. Haase -- Cell cycle regulation by checkpoints / Kevin J. Barnum and Matthew J. O'Connell -- Interplacy between the cell cycle and double-strand break response in mammalian cells / Kate Beishline and Jane Azizkhan-Clifford -- Cell cycle regulation by protein degradation / Deanna M. Koepp -- Linking chromosome duplication and segregation via sister chromatid cohesion / Adam R. Leman and Eishi Noguchi -- The greatwall : PP2A axis in cell cycle control / Peng Wang, Marcos Malumbres, and Vincent Archambault -- Cell cycle regulation by the nutrient-sensing mammalian target of rapamycin (mTOR) pathway / Elisabet Cuyàs ... [and 3 others] -- The senescence arrest program and the cell cycle / Alessandro Bitto ... [and 4 others] -- Oncogenic Ras pushes (and pulls) cell cycle progression through ERK activation / Paul M. Campbell -- Cell cycle regulation during viral infection / Sumedha Bagga and Michael J. Bouchard -- The roles of cohesins in mitosis, meiosis, and human health and disease / Amanda S. Brooker and Karen M. Berkowitz -- Introductory review of computational cell cycle modeling / Andres Kriete, Eishi Noguchi, and Christian Sell -- Cell cycle synchronization and flow cytometry analysis of mammalian cells / Naoko Yoshizawa-Sugata and Hisao Masai -- Analyzing transcription dynamics during the budding yeast cell cycle / Adam R. Leman, Sara L. Bristow, and Steven B. Haase -- Analyzing cell cycle checkpoints in response to ionizing radiation in mammalian cells / Bin Wang -- Analyzing DNA replication checkpoint in budding yeast / Nicole Hustedt and Kenji Shimada -- Analyzing cell cycle-dependent degradation and ubiquitination in budding yeast / Dong-Hwan Kim and Deanna M. Koepp -- Imaging analysis of cell cycle-dependent degradation of Cdt1 in mammalian cells Yasushi Shiomi ... [and 4 others] -- PCNA-dependent ubiquitination of Cdt1 and p21 in mammalian cells / Akiyo Hayashi ... [and 3 others] -- Analyzing Cdc2/Cdk1 activation during stress response in Schizosaccharomyces pombe / Miguel A. Rodríguez-Gabriel -- Analyzing Ras-associated cell proliferation signaling / Matthew C. Stout ... [and 4 others] -- Telomere regulation during the cell cycle in fission yeast / Bettina A. Moser, Ya-Ting Chang, and Toru M. Nakamura -- Detecting senescence : methods and approaches / Elizabeth P. Crowe ... [and 5 others] -- Analyzing RB and E2F during the G1-S transition / Michael J. Thwaites, Matthew J. Cecchini, and Frederick A. Dick -- Analyzing G1-S transcriptional control / Steffi Klier, Sarah Farmer, and Robertus A.M. de Bruin -- Analysis of replication timing using synchronized budding yeast cultures / Jie Peng, M.K. Raghuraman, and Wenyi Feng -- Analysis of ssDNA gaps and DSBs in genetically unstable yeast cultures / Jie Peng, M.K. Raghuraman, and Wenyi Feng -- Chromatin fractionation analysis of licensing factors in mammalian cells / Hideo Nishitani ... [and 4 others] -- Imaging analysis to determine chromatin binding of the licensing factor MCM2-7 in mammalian cells / Masayuki Morino ... [and 3 others] -- Chromatin immunopreciptiation to investigate origin association of replication factors in mammalian cells / Adam R. Leman and Eishi Noguchi -- Live-cell fluorescence imaging for phenotypic analysis of mitosis / Sushama Sivakumar, John R. Daum, and Gary J. Gorbsky -- Analyzing sister chromatid cohesion in mammalian cells / Katherine M. Feeney, Laura McFarlane-Majeed, and Joanna L. Parish -- Affinity purification of protein complexes from Drosophila embryos in cell cycle studies / Zoltan Lipinszki ... [and 8 others] -- Tracking histone variant nucleosomes across the human cell cycle using biophysical, biochemical, and cytological analyses / Marcin P. Walkiewicz ... [and 3 others].
- 2014 SpringerHao Wu, editor.Beginning from centuries of anecdotal descriptions of cell death, such as those on the development of the midwife toad in 1842 by Carl Vogt, to modern-day investigations of cell death as a biological discipline, it has become accepted that cell death in multicellular organisms is a normal part of life. This book provides a comprehensive view of cell death, from its mechanisms of initiation and execution, to its implication in human disease and therapy. Physiological cell death plays critical roles in almost all aspects of biology, and the book details its roles in lymphocyte homeostasis, neuronal function, metabolism, and the DNA damage response.?When physiological cell death goes awry, diseases can arise, and cancer is presented as a central paradigm for the consequences of derangements in the interplay between cell survival and cell death. At the same time, the potential promise of targeted therapies aimed at interdicting cell death machineries are also discussed extensively. The molecular mechanisms that underlie apoptotic cell death are illustrated from the perspectives of both the intrinsic, mitochondrial apoptotic pathway and the extrinsic, death receptor pathway. Key players in these pathways, such as the Bcl2 family proteins, cytochrome c, Apaf-1, caspases, death receptor adapter proteins, and inhibitor of apoptosis proteins, are presented from both functional and structural angles. Until only a few years ago, programmed cell death has been considered essentially synonymous with apoptosis. However, we now know that programmed cell death can also take other forms such as necrosis or necroptosis, and to this end, the mechanisms that underlie programmed necrosis in development and host defense are illustrated. The past twenty plus years have seen an incredible growth of research in cell death, with one breakthrough after another, and the legacy still goes on with constant new surprises and findings. Long live cell death!
- v. 1-, 1999- SpringerAl-Rubeai, Mohamed.
- 2012 ScienceDirect[edited by] Nicholas Sperelakis.Sect. I. Biophysical chemistry, metabolism, second messengers, and ultrastructure. Biophysical chemistry of physiological solutions / Jeffrey c. Freedman -- Physiological structure and function of proteins / Matthew R. Pincus -- Cell membranes / Jeffrey C. Freedman -- Ionophores in planar lipid bilayers / Jeffrey C. Freedman -- Cell structure / Michael S. Forbes -- Signal transduction and second messengers / Aldebaran M. Hofer -- Calcium as an intracellular second messenger: mediation by calcium-binding proteins / John R. Dedman and Marcia A. Kaetzel -- Sect. II. Membrane potential, transport physiology, pumps, and exchangers. Diffusion and permeability / Nicholas Sperelakis and Jeffrey C. Freedman -- Origin of resting membrane potentials / Nicholas Sperelakis -- Gibbs-Donnan equilibrium potentials / Nicholas Sperelakis -- Mechanisms of carrier-mediated transport: facilitated diffusion, cotransport and countertransport / Steven M. Grassl -- Active ion transport by ATP-driven ion pumps / Robert A. Farley -- Ca2+ -ATPases / Tracy J. Pritchard, Istvan Edes and Evangelia G. Kranias -- Na+ -Ca2+ exchange currents / John H.B. Bridge, Natalia S. Torres and Michela Ottolia -- Intracellular chloride regulation / Francisco J. Alvarez-Leefmans -- Osmosis and regulation of cell volume / Clive M. Baumgarten and Joseph J. Feher -- Intracellular pH regulation / Robert W. Putnam -- Sect. III. Membrane excitability and ion channels. Cable properties and propagation of action potentials / Nicholas sperelakis -- Electrogenesis of membrane excitability / Nicholas Sperelakis -- Patch-clamp techniques / Laura Conforti -- Structure and mechanism of voltage-gated ion channels / Simon Rock Levinson and William A. Sather -- Biology of gap junctions / Richard D. Veenstra -- Regulation of cardiac ion channels by cyclic nucleotide-dependent phosphorylation / Gordon M. Wahler and Nicholas Sperelakis -- Direct regulation of ion channels by GTP-binding proteins / Atsushi Inanobe and Yoshihisa Kurachi -- Developmental changes in ion channels / Takeshi Kobayashi ... [et al.] -- Regulation of ion channel localization and activity through interactions with the cytoskeleton / Stephen Lambert -- Why are so many ion channels mechanosensitives? / Catherine E. Morris -- Sect. IV. Ion channels as targets for toxins, drugs, and genetic diseases. Ion channels as targets for toxins / Kenneth M. Blumenthal -- Ion channels as targets for drugs / Seth Robey, Kevin J. Sampson and Robert S. Kass -- Inherited diseases of ion transport / Robert A. Farley -- Sect. V. Synaptic transmission and sensory transduction. Ligand-gated ion channels / Kenneth R. Tovar and Gary L. Westbrook -- Synaptic transmission / Janusz B. Suszkiw -- Excitation-secretion coupling / Nicole Gallo-Payet and Marcel Daniel Payet -- Stimulus-response coupling in metabolic sensor cells / Stan Misler -- Cyclic nucleotide-gated ion channels / Anita L. Zimmerman -- Sensory receptors and mechanotransduction / Andrew S. French and Päivi H. Torkkeli -- Acoustic transduction / Daniel C. Marcus -- Visual transduction / Anita L. Zimmerman -- Gustatory and olfactory sensory transduction / Stephen D. Roper -- Infrared sensory organs / Stephen D. Roper and Michael S. Grace -- Electroreceptors and magnetoreceptors / Timothy C. Tricas and Bruce A. Carlson -- Sect. VI. Muscle and other contractile systems. Skeletal muscle excitability / Nicholas Sperelakis, Judith Heiny and Hugo gonzalez-Serratos -- Cardiac action potentials / Gordon M. Wahler -- Smooth muscle excitability / Neil D. Detweiler ... [et al.] -- Excitation-contraction coupling in skeletal muscle / Judith A. Heiny and Gerhard Meissner -- Contraction of muscles: mechanochemistry / Richard J. Paul -- Flagella, cilia, actin- and centrin-based movement / Kenneth W. Foster -- Electrocytes of electric fish / Anthony L. Gotter, Marcia A. Kaetzel and John R. Dedman -- Sect. VII. Protozoa and bacteria. Physiological adaptations of protists / Michael Levandowsky -- Physiology of prokaryotic cells / Dennis W. Grogan -- Sect. VIII. Specialized processes: photosynthesis and bioluminescence. Photosynthesis / Darrell Fleischman -- bioluminescence / J. Woodland Hastings.
- 2011 SpringerYasushi Sako, Masahiro Ueda, editors.
- 2011 Springer Protocolsedited by Ella Palmer.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.
- 2006. Springer[edited by] Frantisek Baluska, Dieter Volkmann, Peter W. Barlow.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.
- 2013 Springer Protocolsedited by Troy A. Baudino.Proteomics analysis of contact-initiated eph receptor-ephrin signaling / Claus Jorgensen and Alexei Poliakov -- Control of vascular tube morphogenesis and maturation in 3D extracellular matrices by endothelial cells and pericytes / George E. Davis ... [and 8 others] -- Analyzing cell-cell interactions in 3-dimensional adhesion assays / Stephanie L.K. Bowers and Troy A. Baudino -- Production of spontaneously beating neonatal rat heart tissue for calcium and contractile studies / Fnu Gerilechaogetu ... [and 6 others] -- Paracrine communication between mechanically stretched myocytes and fibroblasts / Hao Feng ... [and 6 others] -- Assessing blood-brain barrier function using in vitro assays / Joseph Bressler, Katherine Clark, and Cliona O'Driscoll -- Methods to assess tissue permeability / Juan C. Ibla and Joseph Khoury -- In vivo quantification of metastatic tumor cell adhesion in the pulmonary microvasculature / F. Bartsch ... [and 4 others] -- Cell membrane vesicles as a tool for the study of direct epithelial-stromal interaction: lessons from CD147 / Eric Gabison ... [and 3 others] -- Microencapsulation of stem cells to study cellular interactions / Keith Moore, Adam Vandergriff, and Jay D. Potts -- Cell-surface protein-protein interaction analysis with time-resolved FRET and snap-tag technologies / Timothy N. Feinstein -- Single cell analysis of lipid rafts / William T. Lee -- Micropatterning cell adhesion on polyacrylamide hydrogels / Jian Zhang ... [and 3 others] -- Measuring cell-cell tugging forces using bowtie-patterned mPADs (microarray post detectors) / Daniel M. Cohen, Mike T. Yang, and Christopher S. Chen -- Generation and analysis of biosensors to measure mechanical forces within cells / Katharina Austen ... [and 4 others] -- Proteomic analysis of the left ventricle post-myocardial infarction to identify in vivo candidate matrix metalloproteinase substrates / Andriy Yabluchanskiy ... [and 5 others].
- 2006 Springer Protocolsedited by Sean P. Colgan.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.] --
- 2015 Springer Protocolsedited by Ülo Langel.Classes of cell-penetrating peptides / Margus Pooga and Ülo Langel -- Penetratin story : an overview / Edmond Dupont, Alain Prochiantz, and Alain Joliot -- Prediction of cell-penetrating peptides / Mattias Hällbrink and Mati Karelson -- Computer-aided virtual screening and designing of cell- penetrating peptides / Ankur Gautam, Kumardeep Chaudhary, Rahul Kumar, and Gajendra Pal Singh Raghava -- Investigating membrane interactions and structures of CPPs / Fatemeh Madani and Astrid Gräslund -- Determining the effects of membrane-interacting peptides on membrane integrity / William C. Wimley -- Study of CPP mechanisms by mass spectrometry / Sandrine Sagan, Chérine Bechara, and Fabienne Burlina -- Methods to study the role of the glycocalyx in the uptake of cell-penetrating peptides / Samuel Schmidt, Rike Wallbrecher, Toin H. van Kuppevelt, and Roland Brock -- Toxicity, immunogenicity, uptake, and kinetics methods for CPPs / Julia Uusna, Kent Langel, and Ülo Langel -- Unraveling the mechanisms of peptide-mediated delivery of nucleic acids using electron microscopy / Helerin Margus, Carmen Juks, and Margus Pooga -- SCARA involvement in the uptake of nanoparticles formed by cell-penetrating peptides / Henrik Helmfors, Staffan Lindberg, and Ülo Langel -- Protein mimicry and the design of bioactive Cell- penetrating peptides / John Howl and Sarah Jones -- Pepducins and other lipidated peptides as mechanistic probes and therapeutics / Ping Zhang, Lidija Covic, and Athan Kuliopulos -- Identification and characterization of homing peptides using in vivo peptide phage display / Maija Hyvönen and Pirjo Laakkonen -- Antimicrobial and antiviral applications of cell- penetrating peptides / Kalle Pärn, Elo Eriste, and Ülo Langel -- Visualizing actin architectures in cells incubated with cell-penetrating peptides / Lin He, Peter D. Watson, and Arwyn T. Jones -- Cell-penetrating peptides as carriers for transepithelial drug delivery in vitro / Stine Rønholt, Mie Kristensen, and Hanne Mørck Nielsen -- Pathway toward tumor cell-selective CPPs? / Isabel D. Alves, Manon Carré, and Solange Lavielle -- PepFects and nickFects for the intracellular delivery of nucleic acids / Piret Arukuusk, Ly Pärnaste, Mattias Hällbrink, and Ülo Langel -- In vitro assays to assess exon skipping in duchenne muscular dystrophy / Prisca Boisguerin, Liz O'Donovan, Michael J. Gait, and Bernard Lebleu -- Applications of ApoB LDLR-binding domain approach for the development of CNS-penetrating peptides for alzheimer's disease / Eliezer Masliah and Brian Spencer -- CPP-based delivery system for in vivo gene delivery / Kaido Kurrikoff, Kadi-Liis Veiman, and Ülo Langel -- Application of CPPs for brain delivery / Artita Srimanee, Jakob Regberg, and Ülo Langel -- Intracellular delivery of nanoparticles with cell penetrating peptides / Giuseppina Salzano and Vladimir P. Torchilin -- Multifunctional oligoaminoamides for the receptor-specific delivery of therapeutic RNA / Judith Weber, Ulrich Lächelt, and Ernst Wagner -- Cell penetrating peptides for chemical biological studies / Ikuhiko Nakase, Toshihide Takeuchi, and Shiroh Futaki -- Experiences with CPP-based self assembling peptide systems for topical delivery of botulinum toxin / Jane Lee, Phil Kennedy, and Jacob M. Waugh -- Applications of CPPs in genome modulation of plants / Alicja Ziemienowicz, Jordan Pepper, and François Eudes -- DNA transfer into animal cells using stearylated CPP based Transfection Reagent / Kristiina Karro, Tiiu Männik, Andres Männik, and Mart Ustav -- Live cell genomics : cell-specific transcriptome capture in live tissues and cells / Thomas J. Bell and James Eberwine -- Live cell genomics : RNA exon-specific RNA-binding protein isolation / Thomas J. Bell and James Eberwine.
- 2011 Springer Protocolsedited by Ülo Langel.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.
- 2013 Springer Protocolsedited by Race L. Kao.Cellular cardiomyoplasty : its past, present, and future / Elizabeth K. Lamb, Grace W. Kao, and Race L. Kao -- Skeletal muscle stem cells / Grace W. Kao, Elizabeth K. Lamb, and Race L. Kao -- Bone marrow stem cells / Minh Ngoc Duong, Yu-Ting Ma, and Ray C.J. Chiu -- Adipose tissue-derived mesenchymal stem cells : isolation, expansion and characterization / Miriam Araña [and 4 others] -- Cardiac side population cells and Sca-1-positive cells / Toshio Nagai, Katsuhisa Matsuura, and Issei Komuro -- Two-step protocol for isolation and culture of cardiospheres / Lijuan Chen [and 5 others] -- Generation of human iPSCs from human peripheral blood mononuclear cells using non-integrative sendai virus in chemically defined conditions / Jared M. Churko, Paul W. Burridge, and Joseph C. Wu -- Identification of stem cells after transplantation / Yingjie Wang [and 5 others] -- Methods to study the proliferation and differentiation of cardiac side population (CSP) cells / Konstantina-Ioanna Sereti [and 3 others] -- Immune responses after mesenchymal stem cell implantation / Rony Atoui and Ray C.J. Chiu -- Route of delivery, cell retention, and efficiency of polymeric microcapsules in cellular cardiomyoplasty / Alice Le Huu [and 3 others] -- Angiogenic nanodelivery systems for myocardial therapy / Arghya Paul, Dominique Shum-Tim, and Satya Prakash -- Bio-hybrid tissue engineering for cellular cardiomyoplasty : future directions / Juan Carlos Chachques -- Decellularized whole heart for bioartificial heart / Hug Aubin [and 4 others] -- Clinical trials of cardiac repair with adult bone marrow-derived cells / Vinodh Jeevanantham [and 3 others] -- Clinical study using adipose-derived mesenchymal-like stem cells in acute myocardial infarction and heart failure / Ilia Alexander Panfilov [and 3 others].
- 2012 SpringerBrian Henderson, A. Graham Pockley, editors.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 : diseases with defective molecular chaperones : an introduction and guide to diseases in which chaperones play an etiologic-pathogenic role2013 SpringerAlberto J. L. Macario, Everly Conway de Macario, Francesco Cappello.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.
- 2005 Springer Protocolsedited by Edward D. Zanders.Also available: Print – 2005
- 2006 SpringerS. Jaroch, H. Weinmann, editors.
- 2013 CRCnetBASEedited by Ferenc Darvas, Andras Guttman, Gyorgy Dorman.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.
- 2011 Springer Protocolsedited by Joe Zhongxiang Zhou.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.].
- 2013 Springer Protocolsedited by Matthew R. Banghart.Engineering k(+) channels using semisynthesis -- Chemical derivatization and purification of peptide-toxins for probing ion channel complexes -- Using yeast to study potassium channel function and interactions with small molecules -- A FLIPR assay for evaluating agonists and antagonists of GPCR heterodimers -- Characterizing caged molecules through flash photolysis and transient absorption spectroscopy -- Characterization of one- and two-photon photochemical uncaging efficiency -- Photochromic potassium channel blockers: Design and electrophysiological characterization -- A (1)h NMR assay for measuring the photostationary states of photoswitchable ligands -- Developing a photoreactive antagonist -- Development and in vitro characterization of ratiometric and intensity-based fluorescent ion sensors -- Characterization of voltage-sensitive dyes in living cells using two-photon excitation -- Characterization and validation of fluorescent receptor ligands: A case study of the ionotropic serotonin receptor -- Imaging single synaptic vesicles in mammalian central synapses with quantum dots -- Directed evolution of protein-based neurotransmitter sensors for MRI.
- v. 1-3, 1970.edited by Endre A. Balazs.v. 1. Collagen, basal laminae elastin --v. 2. Glycosaminoglycans and proteoglycans --v. 3. Structural organization and function of the matrix.
- 2016 ScienceDirectedited by Tracy M. Handel.
- 2013 Springer Protocolsedited by Astrid E. Cardona, Eroboghene E. Ubogu.Chemokines constitute a large family of structurally similar cytokines that contain a signature of conserved cysteine residues joined by disulfide bridges. Binding of chemokines to specific G protein-coupled receptors followed by downstream signaling defines their biological function. Initially, chemoattraction was the key function linked to chemokines/chemokine receptors; however, in recent years, it has become clear that chemokine ligand-receptor interactions can also modulate cellular activation, survival, and proliferation, among other functions in homeostatic and diseased states. Importantly, major advances in our understanding of chemokine biology have led to chemokine receptors becoming specific therapeutic targets with great potential. In Chemokines: Methods and Protocols, expert researchers provide practical information regarding experimental models and state of the art protocols used to delineate chemokine/chemokine receptor function and their applications in health and disease. Written in the highly successful Methods in Molecular Biology series format, chapters include introductions to their respective topics, lists of the necessary materials and reagents, step-by-step, readily reproducible laboratory protocols, and tips on troubleshooting and avoiding known pitfalls. Practical and easy to use, Chemokines: Methods and Protocols aims to reveal key protocols of functional and descriptive chemokine ligand/receptor assays that will be of practical significance to graduate students, post-doctoral fellows, trainees, and researchers in academia and industry.
- 2012 Springer Protocolsedited by Randall H. Morse.Strain construction and screening methods for a yeast histone H3/H4 mutant library / Junbiao Dai and Jef D. Boeke -- Measuring dynamic changes in histone modifications and nucleosome density during activated transcription in budding yeast / Chhabi K. Govind, Daniel Ginsburg, and Alan G. Hinnebusch -- Monitoring the effects of chromatin remodelers on long-range interactions in vivo / Christine M. Kiefer and Ann Dean -- Measuring nucleosome occupancy in vivo by micrococcal nuclease / Gene O. Bryant -- Analysis of nucleosome positioning using a nucleosome-scanning assay / Juan Jose Infante, G. Lynn Law, and Elton T. Young -- Assaying chromatin structure and remodeling by restriction enzyme accessibility / Kevin W. Trotter and Trevor K. Archer -- Generation of DNA circles in yeast by inducible site-specific recombination / Marc R. Gartenberg -- An efficient purification system for native minichromosome from Saccharomyces cerevisiae / Ashwin Unnikrishnan [and others] -- Simultaneous single-molecule detection of endogenous C-5 DNA methylation and chromatin accessibility using MAPit / Russell P. Darst [and others] -- Analysis of stable and transient protein-protein interactions / Stephanie Byrum [and others] -- Monitoring dynamic binding of chromatin proteins in vivo by fluorescence recovery after photobleaching / Florian Mueller [and others] -- Monitoring dynamic binding of chromatin proteins in vivo by fluorescence correlation spectroscopy and temporal image correlation spectroscopy / Davide Mazza [and others] -- Analysis of chromatin structure in plant cells / Mala Singh [and others] -- Analysis of histones and histone variants in plants / Ila Trivedi [and others] -- Reconstitution of modified chromatin templates for in vitro functional assays / Miyong Yun [and others] -- A defined in vitro system to study ATP-dependent remodeling of short chromatin fibers / Verena K. Maier and Peter B. Becker -- In vitro reconstitution of in vivo-like nucleosome positioning on yeast DNA / Christian J. Wippo and Philipp Korber -- Activator-dependent acetylation of chromatin model systems / Heather J. Szerlong and Jeffrey C. Hansen -- Mapping assembly favored and remodeled nucleosome positions on polynucleosomal templates / Hillel I. Sims, Chuong D. Pham, and Gavin R. Schnitzler -- Analysis of changes in nucleosome conformation using fluorescence resonance energy transfer / Tina Shahian and Geeta J. Narlikar -- Preparation of nucleosomes containing a specific H2A-H2A cross-link forming a DNA-constraining loop structure / Ning Liu and Jeffrey J. Hayes -- Sulfyhydryl-reactive site-directed cross-linking as a method for probing the tetrameric structure of histones H3 and H4 -/ Andrew Bowman and Tom Owen-Hughes -- Genomic approaches for determining nucleosome occupancy in yeast Kyle Tsui [and others] -- Genome-wide approaches to determining nucleosome occupancy in metazoans using MNase-Seq / Kairong Cui and Keji Zhao -- Salt fractionation of nucleosomes for genome-wide profiling / Sheila S. Teves and Steven Henikoff -- Quantitative analysis of genome-wide chromatin remodeling / Songjoon Baek, Myong-Hee Sung, and Gordon L. Hager -- Computational analysis of nucleosome positioning / Itay Tirosh.
- 2015 Springer Protocolsedited by Shondra M. Pruett-Miller.Genome editing by targeted chromosomal mutagenesis -- Piggybac transposon-based insertional mutagenesis in mouse haploid embryonic stem cells -- Using phage integrases in a site-specific dual integrase cassette exchange strategy -- Therapeutic genome mutagenesis using synthetic donor DNA and triplex-forming molecules -- Genome engineering using adeno-associated virus (AAV) -- Engineering of customized meganucleases via in vitro compartmentalization and in cellulo optimization -- Efficient design and assembly of custom TALENs using the golden gate platform -- Ligation-independent cloning (LIC) assembly of TALEN genes -- Assembly and characterization of megatals for hyperspecific genome engineering applications -- Genome engineering using CRISPR-Cas9 system -- Donor plasmid design for codon and single base genome editing using zinc finger nucleases -- Endogenous gene tagging with fluorescent proteins -- Silencing long noncoding RNAs with genome-editing tools -- Gene editing using ssODNs with engineered endonucleases -- Genome editing in human pluripotent stem cells using site-specific nucleases -- Strategies to increase genome editing frequencies and to facilitate the identification of edited cells -- Using engineered endonucleases to create knockout and knockin zebrafish models -- Creating knockout and knockin rodents using engineered endonucleases via direct embryo injection -- Simple sperm preservation by freeze-drying for conserving animal strains.
- 2008 Springer Protocolsedited by Gregory D. Davis, Kevin J. Kayser.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.
- 2007 Springer Protocolsedited by Ezio Rosato.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 --
- 2013 Springer Protocolsedited by Nobuyoshi Kosaka.Functional analysis of exosomal microRNA in cell-cell communication research / Nobuyoshi Kosaka [and others] -- Isolation of extracellular nanovesicle microRNA from liver cancer cells in culture / Takayuki Kogure and Tushar Patel -- Methods of analysis of dendritic cell-derived exosome-shuttle microRNA and its horizontal propagation between dendritic cells / Angela Montecalvo, Adriana T. Larregina, and Adrian E. Morelli -- Analysis of microRNA and protein transfer by exosomes during an immune synapse / Carolina Villarroya-Beltri -- Analysis of viral microRNA exchange via exosomes in vitro and in vivo / Frederik J. Verweij [and others] -- Measurement of precursor miRNA in exosomes from human ESC-cerived mesenchymal stem cells / Tian Sheng Chen and Sai Kiang Lim -- Analysis of the transfer of circulating microRNA between cells mediated by gap junction / Steven J. Greco and Pranela Rameshwar -- Isolation of circulating microRNA associated with RNA-binding protein / Andrey Turchinovich, Ludmila Weiz, and Barbara Burwinkel -- Identification and analysis of circulating exosomal microRNA in human body fluids / Cecilia Lässer -- Analyzing the circulating microRNAs in exosomes/extracellular vesicles from serum or plasma by qRT-PCR / Leni Moldovan [and others] -- Direct serum assay for microRNA in cancer patients / Sota Asaga and Dave S.B. Hoon -- Analysis of microRNA niches : techniques to measure extracellular microRNA and intracellular microRNA in situ / Victoria N. Parikh and Stephen Y. Chan -- Analysis of circulating microRNA by microarray in liver disease / Yoshiki Murakami and Toshihito Tanahashi -- Isolation of circulating microRNA in saliva / Alessia Gallo and Ilias Alevizos -- Purification of RNA from milk whey / Hirohisa Izumi [and others] -- Circulating microRNAs in the cerebrospinal fluid of patients with brain diseases / Akira Machida, Takuya Ohkubo, and Takanori Yokota -- Methods of microRNA quantification in urinary sediment / Gang Wang and Cheuk Chun Szeto -- Circulating microRNA for the identification of forensically relevant body fluids / Erin K. Hanson and Jack Ballantyne -- Identification of prostate cancer-associated microRNAs in circulation using a mouse model of disease / Luke A. Selth [and others] -- Combination of extraction reagent and DNA microarray that allows for the detection of global miRNA profiles from serum/plasma / Makiko Ichikawa and Hideo Akiyama -- Nanopore single-molecule detection of circulating microRNAs / Li-Qun Gu and Yong Wang.
- 2006 Springer Protocolsedited by Y.M. Dennis Lo, Rossa W.K. Chiu, K.C. Allen Chan.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 molecular genetics in the UK c.1975-c.2000 : the transcript of a witness seminar held by the History of Modern Biomedicine Research Group, Queen Mary, University of London, on 5 February 20132014 Wellcome Trustedited by E.M. Jones and E.M. Tansey.
- 2015 Springer Protocolsedited by Antonia Vlahou, Manousos Makridakis.Biological sample collection for clinical proteomics : existing SOPs / Vasiliki Lygirou, Manousos Makridakis, and Antonia Vlahou -- Targeting the proteome of cellular fractions : focus on secreted proteins / Agnieszka Latosinska [and others] -- Preparation of urinary exosomes : methodological issues for clinical proteomics / Marina Pitto, Samuele Corbetta, and Francesca Raimondo -- Sample treatment methods involving combinatorial peptide ligand libraries for improved proteomes analyses / Pier Giorgio Righetti and Egisto Boschetti -- Glycoprotein enrichment method Using a selective magnetic nano-probe platform (MNP) functionalized with lectins / Marta Cova [and others] -- Latest advancements in proteomic two-dimensional gel electrophoresis analysis applied to biological samples / Laura Santucci [and others] -- 2DE maps in the discovery of human autoimmune kidney diseases : the case of membranous glomerulonephritis / Maurizio Bruschi, Laura Santucci, Gian Marco Ghiggeri, and Giovanni Candiano -- MALDI-imaging mass spectrometry on tissues / Veronica Mainini [and others] -- Laser capture microdissection of fluorescently labeled amyloid plaques from alzheimer's disease brain tissue for mass spectrometric analysis / Diana A.T. Nijholt, Christoph Stingl, and Theo M. Luider -- Urine sample preparation and fractionation for global proteome profiling by LC-MS / Magali Court, Jérôme Garin, and Christophe D. Masselon -- Methods in capillary electrophoresis coupled to mass spectrometry for the identification of clinical proteomic/peptidomic biomarkers in biofluids / Angelique Stalmach [and others] -- Quantification of proteins in urine samples using targeted mass spectrometry methods / Nina Khristenko and Bruno Domon -- Statistical issues in the design and planning of proteomic profiling experiments / David A. Cairns -- Integrating proteomics profiling data sets : a network perspective / Akshay Bhat, Mohammed Dakna, and Harald Mischak -- European medicines agency experience with biomarker qualification / Efthymios Manolis [and others].
- 2008 Springer Protocolsedited by Antonia Vlahou.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.
- 2009 CRCnetBASEedited by Gregory A. Voth.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.
- 2006 SpringerPer Sunnerhagen, Jure Piškur (eds.).Also available: Print – 2006
- 2011 AtyponOzkan Ufuk Nalbantoglu and Khalid Sayood.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.
- 2010Ankur Dhanik.Proteins are biomolecules that play a key role in a wide diversity of vital functions, such as metabolism and signal transmission. Each protein is a linear chain of amino acids that folds into a flexible three-dimensional structure. Protein's flexibility is widely believed to be essential for its function. Motion of a protein occurs at timescales that span several orders of magnitude. Thermal fluctuations, which occur in picoseconds, are small-amplitude, uncorrelated, harmonic motions of the individual atoms. In contrast, conformational deformations closely related to the protein's function occur in microseconds to milliseconds. These slow deformations are usually large-scale, correlated, anharmonic motions that correspond to transitions between meta-stable states, such as binding and non-binding states. In this dissertation we are mainly interested in modeling structural heterogeneity associated with such slow deformations. This dissertation presents new computational methods to study the flexibility of folded protein in the context of three important biological problems: (a) Loop sampling, (b) Interpretation of electron density maps, and (c) Determination of allosteric pathways. Computational modeling of structural heterogeneity in the folded state of a protein is a challenging problem, mainly because of the high-dimensionality of the protein's conformation space and the very small relative volume of its feasible motion space. Although our methods are specific to each of the three problems, they share the same sample and select approach: they combine efficient sampling algorithms that allow us to represent structural heterogeneity in a folded protein by a collection of sampled conformations and selection algorithms that allow us to reliably pick the sampled conformations that provide a solution to the problem. This dissertation demonstrates the power of geometric computation and efficient sampling to model structural heterogeneity in the folded protein.
- 2015 Springer Protocolsedited by Peng Zhou, Jian Huang,.De novo peptide structure prediction : an overview / Pierre Thévenet [and three others] -- Molecular modeling of peptides / Krzysztof Kuczera -- Improved methods for classification, prediction, and design of antimicrobial peptides / Guangshun Wang -- Building MHC class II epitope predictor using machine learning approaches / Loan Ping Eng, Tin Wee Tan, and Joo Chuan Tong -- Brownian dynamics simulation of peptides with the University of Houston Brownian Dynamics (UHBD) program / Tongye Shen and Chung F. Wong -- Computational prediction of short linear motifs from protein sequences / Richard J. Edwards and Nicolas Palopoli -- Peptide toxicity prediction / Sudheer Gupta [and five others] -- Synthetic and structural routes for the rational conversion of peptides into small molecules / Pasqualina Liana Scognamiglio, Giancarlo Morelli, and Daniela Marasco -- In silico design of antimicrobial peptides / Giuseppe Maccari, Mariagrazia Di Luca, and Riccardo Nifosì -- Information-driven modeling of protein-peptide complexes / Mikael Trellet, Adrien S.J. Melquiond, and Alexandre M.J.J. Bonvin -- Computational approaches to developing short cyclic peptide modulators of protein-protein interactions / Fergal J. Duffy, Marc Devocelle, and Denis C. Shields -- A use of homology modeling and molecular docking methods : to explore binding mechanisms of nonylphenol and bisphenol A with antioxidant enzymes / Mannu Jayakanthan [and three others] -- Computational peptide vaccinology / Johannes Söllner -- Computational modeling of peptide-aptamer binding / Kristen L. Rhinehardt, Ram V. Mohan, and Goundla Srinivas.
- 2009 Springer Protocolsedited by Jason McDermott ... [et al.].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.
- 2012 Springer Protocolsedited by Michael A.K. Liebschner.Computer-aided tissue engineering : benefiting from the control over scaffold micro-architecture / Ahmad M. Tarawneh, Matthew Wettergreen, and Michael A.K. Liebschner -- Computer-aided approach for customized cell-based defect reconstruction / Ulrich Meyer, Jorg Neunzehn, and Hans Peter Wiesmann -- Novel bone scaffold design approach based on shape function and all-hexahedral mesh refinement / Shengyong Cai, Juntong Xi, and Chee Kai Chua -- Rapid prototyping composite and complex scaffolds with PAM2 / Giovanni Vozzi, Annalisa Tirella, and Arti Ahluwalia -- Scaffold pore space modulation through intelligent design of dissolvable microparticles / Michael A.K. Liebschner and Matthew Wettergreen -- Scaffold informatics and biomimetic design : three-dimensional medical reconstruction / Jorge Vicente Lopes da Silva, Tatiana Al-Chueyr Pereira Martins, and Pedro Yoshito Noritomi -- Development of computer-aided system for tissue scaffolds (CASTS) system for functionally graded tissue-engineering scaffolds / Novella Sudarmadji, Chee Kai Chua, and Kah Fai Leong -- Computer-designed nano-fibrous scaffolds / Laura A. Smith and Peter X. Ma -- Neural network technique for remeshing of bone microstructure / Anath Fischer and Yaron Holdstein -- Using the Taguchi method to obtain more finesse to the biodegradable fibers / Ville Ellssa [and others] -- Numerical modeling in the design and evaluation of scaffolds for orthopaedics applications / Wojciech Swieszkowski and Krzysztof J. Kurzydlowski -- Structural and vascular analysis of tissue engineering scaffolds, part 1 : numerical fluid analysis / Henrique A. Almeida and Paulo J. Bartolo -- Structural and vascular analysis of tissue engineering scaffolds, part 2 : topology optimisation / Henrique A. Almeida and Paulo J. Bartolo -- Modeling of bioreactor hydrodynamic environment and its effects on tissue growth / Bahar Bilgen and Gilda A. Barabino -- Recent advances in 3D printing of tissue engineering scaffolds / Min Lee and Benjamin M. Wu -- Graft-artery junctions : design optimization and CAD development / Yos S. Morsi [and others] -- Projection printing of 3-dimensional tissue scaffolds / Yi Lu and Shaochen Chen -- Laser sintering for the fabrication of tissue engineering scaffolds / Stefan Lohfeld and Peter E. McHugh -- Three-dimensional microfabrication by two-photon polymerization technique / Aleksandr Ovsianikov and Boris N. Chichkov -- Direct fabrication as a patient-targeted therapeutic in a clinical environment / Dietmar W. Hutmacher [and others] -- Microstereolithography-based computer-aided manufacturing for tissue engineering / Dong-Woo Cho and Hyun-Wook Kang.
- 2002 CRCnetBASEPei-Show Juo.Also available: Print – 2002
- 2006 Springer Protocolsedited by Mary Kearns-Jonker.Genetics of cardiac septation defects and their pre-implantation diagnosis / Deborah A. McDermott, Craig T. Basson, and Cathy J. Hatcher -- Molecular and genetic aspects of DiGeorge/velocardiofacial syndrome / Deborah A. Driscoll -- Mutation screening for the genes causing cardiac arrhythmias / Jeffrey A. Towbin -- Mutation analysis of the FBN1 gene in patients with Marfan syndrome / Paul Coucke, Petra Van Acker, and Anne De Paepe -- Mutation analysis of PTPN11 in Noonan syndrome by WAVE / Navaratnam Elanko and Steve Jeffery -- Williams-Beuren syndrome diagnosis using fluorescence in situ hybridization / Lucy R. Osborne, Ann M. Joseph-George, and Stephen W. Scherer -- Congenital heart disease: molecular diagnostics of supravalvular aortic stenosis / May Tassabehji and Zsolt Urban -- "Chip"ping away at heart failure / J. David Barrans and Choong-Chin Liew -- Molecular diagnostics of catecholaminergic polymorphic ventricular tachycardia using denaturing high-perfomance liquid chromatography and sequencing / Alex V. Postma, Zahurul A. Bhuiyan, and Hennie Bikker -- Mutation detection in tumor suppressor genes using archival tissue specimens / Aristotelis Astrinidis and Elizabeth Petri Henske -- Friedreich ataxia: detection of GAA repeat expansions and frataxin point mutations / Massimo Pandolfo -- The cardiovascular manifestations of Alagille syndrome and JAG1 mutations / Elizabeth Goldmuntz, Elizabeth Moore, and Nancy B. Spinner -- Array analysis applied to malformed hearts: molecular dissection of tetralogy of Fallot / Silke Sperling -- DNA mutation analysis in heterotaxy / Stephanie M. Ware -- Use of denaturing high-performance liquid chromatography to detect mutations in pediatric cardiomyopathies / Amy J. Sehnert.
- 2013 Springer Protocolsedited by Bernice Wright, Che J. Connon.Continuous regeneration of the cornea is necessary to maintain this tissue in the transparent state that is essential for vision. Therapy for repair of the damaged anterior cornea is currently addressed through the transplantation of donor corneas or the delivery of limbal epithelial stem cells (LESC) to the ocular surface using amniotic membrane (AM) as a supporting scaffold. Research on the bioengineering of corneal equivalents as replacement tissue is underway to develop viable corneal prosthetics. Corneal Regenerative Medicine: Methods and Protocols provides a concise overview of essential techniques in the field of corneal regenerative medicine, highlighting novel strategies to guide the management of key therapies within this area of medicine. Divided into four convenient sections, topics include the identification, characterisation and cultivation of LESC, as well as the investigation of biopolymers used as the basis for corneal substitutes. Written in the successful Methods in Molecular Biology series format, chapters include introductions to their respective topics, lists of the necessary materials and reagents, step-by-step, readily reproducible protocols, and notes on troubleshooting and avoiding known pitfalls. Authoritative and easily accessible, Corneal Regenerative Medicine: Methods and Protocols covers the fundamental techniques useful for both the laboratory and clinical settings.
- 2013 SpringerRodolphe Barrangou, John van der Oost, editors.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.
- 2007 Springer Protocolsedited by John G. Day, Glyn N. Stacey.
- 2015 Springer Protocolsedited by Willem F. Wolkers, Harriette Oldenhof.This volume provides a variety of standard protocols used to cryopreserve or freeze-dry different types of specimens. In addition, it provides chapters focused on the fundamental principles of cryopreservation, vitrification, and freeze-drying. Several state of the art microscopic, spectroscopic as well as calorimetric methods are highlighted that can be used to study cellular and macromolecular changes in response to freezing or drying. Written in the highly successful Methods in Molecular Biology series format, chapters include introductions to their respective topics, lists of the necessary materials and reagents, step-by-step, readily reproducible laboratory protocols, and tips on troubleshooting and avoiding known pitfalls. Authoritative and practical, Cryopreservation and Freeze-Drying Protocols, Third Edition serves as a practical guideline for studies on freezing and drying processes as well as preservation strategies for biological specimens.
- 1997- Wileyeditorial board, J. Paul Robinson, managing editor ... [et al.].Consists of a core publication dated Apr. 1997, and updated by supplements 1 (July 1997)-<57 (July 2010)>. Content is peer-reviewed protocols for flow and image cytometry updated quarterly.
- 2002- Wileyedited by Frederick M. Ausubel ... [et al.].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.Also available: Print – v. 1-6, 1988-2010.
- - Wileyeditorial board, John E. Coligan ... [et al.].Also available: Print – 1995-2005.
- 2013 Springer Protocolsedited by Chris Gehring.Over the last two decades there has been a growing interest in cyclic nucleotide research in plants with an emphasis on the elucidation of the roles of cGMP and cAMP. In Cyclic Nucleotide Signaling in Plants: Methods and Protocols, expert researchers in the field detail many approaches to better understand the biological role of this important signaling system. Written in the highly successful Methods in Molecular Biology [trademark] series format, chapters include introductions to their respective topics, lists of the necessary materials and reagents, step-by-step, readily reproducible laboratory protocols, and key tips on troubleshooting and avoiding known pitfalls. Authoritative and practical, Cyclic Nucleotide Signaling in Plants: Methods and Protocols seeks to aid scientist in further understanding signal transduction and the molecular mechanisms underlying cellular signaling.
- 2013 Springer Protocolsedited by Ian R. Phillips, Elizabeth A. Shephard, Paul R. Ortiz de Montellano.This volume provides a wide range of techniques accessible to researchers in biochemistry, molecular biology, pharmacology, toxicology, environmental biology and genetics. It features step-by-step, readily reproducible protocols and notes on troubleshooting.
- 2011 Springer Protocolsedited by Michael Hamacher, Martin Eisenacher and Christian Stephan.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.
- 2012 Springer Protocolsedited by François Pompanon and Aurélie Bonin.Sampling and experimental design: Sampling in landscape genomics / Stéphanie Manel, Cécile H. Albert, and Nigel G. Yoccoz. OligoTag : a program for designing sets of tags for next-generation sequencing of multiplexed samples / Eric Coissac. SNP discovery in non-model organisms using 454 next generation sequencing / Christopher W. Wheat. In silico fingerprinting (ISIF) : a user-friendly in silico AFLP program / Margot Paris and Laurence Després -- Producing data: Diversity arrays technology : a generic genome profiling technology on open platforms / Andrzej Kilian [and others]. Two methods to easily obtain nucleotide sequences from AFLP loci of interest / Margot Paris [and others]. Roche genome sequencer flx based high-throughput sequencing of ancient DNA / David E. Alquezar-Planas and Sarah L. Fordyce. Preparation of normalized cDNA libraries for 454 titanium transcriptome sequencing / Zhao Lai [and others]. RAD paired-end sequencing for local de novo assembly and SNP discovery in non-model organisms / Paul D. Etter and Eric Johnson -- Analyzing data: Automated scoring of AFLPs using RawGeno v 2.0, a free R CRAN library / Nils Arrigo, Rolf Holderegger, and Nadir Alvarez. Haplotype inference / Olivier Delaneau and Jean-François Zagury-- Allele identification in assembled genomic sequence datasets / Katrina M. Dlugosch and Aurélie Bonin. Multiple testing in large-scale genetic studies / Matthieu Bouaziz, MArine Jeanmougin, and Mickaël Guedj. Population genomic analysis of model and nonmodel organisms using sequenced RAD tags / Paul A. Hobenlobe, Julian Catchen, and William A. Cresko. Analysis and management of gene and allelic diversity in subdivided populations using the software program METAPOP / Andrés Pérez-Figueroa, Silvia T. Rodriquez-Ramillo, and ARmando Caballero. DetSel : an R-package to detect marker loci responding to selection / Renaud Vitalis. Use of qualitative environmental and phenotypic variables in the context of allele distribution models : detecting signatures of selection in the genome of Lake Victoria cichlids / Stéphane Joost [and others]. Genomic scan as a tool for assessing the genetic component of phenotypic variance in wild populations / Carlos M. Herrera.
- 2005 SpringerAlvaro Macieira-Coelho (ed.).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.Also available: Print – 2005
- 2013 Springer[edited by] Annikka Weissferdt, Cesar A. Moran.Diagnostic Imaging of Lung and Pleural Tumors -- The Staging of Lung Cancer -- Non-Small Cell Carcinomas -- Neuroendocrine Carcinomas -- Biphasic Tumors of the Lungs -- Salivary Gland and Adnexal Type Tumors of the Lungs -- Tumors Derived from Presumed Ectopic Tissues -- Vascular Tumors of the Lungs -- Mesenchymal Tumors of the Lungs -- Lung Tumors of Uncertain Histogenesis -- Malignant Lymphomas Involving Lung and Pleura -- Tumors of the Pleura -- Tumor-like Conditions and Benign Tumors of the Lung -- Molecular Pathology of Lung Cancer.
- J. Stenesh.Also available: Print – 1989
- 2006Paul Singleton, Diana Sainsbury.
- 2007 CRCnetBASEKrishnendu Chakrabarty, Fei Su.
- 2014 Springer Protocolsedited by Elizabeth M.J. Gillam, School of Chemistry and Molecular Bioscience, The University of Queensland, Brisbane, QLD, Australia, Janine N. Copp, Michael Smith Laboratories, University of British Columbia, Vancouver, BC, Canada, David F. Ackerley, School of Biological Sciences, Victoria University of Wellington, Wellington, New Zealand.
- 2006 Springer[edited by] Frank Eisenhaber.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.
- Dissecting the neural mechanisms of cerebellum-dependent learning : enhanced plasticity and instructive signals2012T.D. Barbara Nguyen-Vu.The focus of this thesis is to understand the contribution of multiple learning mechanisms to cerebellum-dependent motor learning. The studies that contribute to this thesis examine the role multiple learning mechanisms in the context of signaling in the intact circuit of awake-behaving animals. By using a well-parameterized learning paradigm, it is possible to distinguish and separate the contribution of specific learning mechanisms to different aspects of learning. This thesis demonstrates the sufficiency to two learning mechanisms long hypothesized to be important for cerebellum-dependent learning: 1) LTD at the parallel fiber to Purkinje cell synapse in the cortex (Marr 1969; Albus 1971; Ito 1972); and 2) the output of Purkinje cell simple spike activity (Miles & Lisberger 1981). Furthermore, the findings highlight the importance of understanding how learning mechanisms operate in vivo and interact with the on-going activity as well as previous activity in the circuit to determine different learning outcomes. The idea that the properties of a learning mechanism do not operate in isolation to produce learning but must be considered in the context of the intact and functional circuit is a common lesson that could apply to and should be tested in other learning systems of the brain.
- 2012 Springer Protocolsedited by W. John Kress and David L. Erickson.DNA barcodes : methods and protocols / W. John Kress and David L. Erickson -- Introduction to animal DNA barcoding protocols / Lee A. Weigt [and others] -- DNA barcodes for insects / John James Wilson -- DNA barcoding methods for invertebrates / Nathaniel Evans and Gustav Paulay -- DNA barcoding amphibians and reptiles / Miguel Vences [and others] -- DNA barcoding fishes / Lee A. Weigt -- DNA barcoding birds : from field collection to data analysis / Dario A. Lijtmaer [and others] -- DNA barcoding in mammals / Natalia V. Ivanova, Elizabeth L. Clare, and Alex V. Borisenko -- Methods for DNA barcoding of fungi / Ursula Eberhardt -- Methods for DNA barcoding photosynthetic protists emphasizing the macroalgae and diatoms / Gary W. Saunders and Daniel C. McDevit -- DNA barcoding methods for land plants / Aron J. Fazekas [and others] -- Field information management systems for DNA barcoding / John Deck [and others] -- Laboratory information management systems for DNA barcoding / Meaghan Parker [and others] -- DNA extraction, preservation, and amplification / Thomas Knebelsberger and Isabella Stoger -- DNA mini-barcodes / Mehrdad Hajibabaei and Charly McKenna -- Ways to mix multiple PCR amplicons into single 454 run for DNA barcoding / Ryuji J. Machida and Nancy Knowlton -- Practical evaluation of DNA barcode efficacy / John L. Spouge and Leonardo Marino-Ramirez -- Plant DNA Barcodes, Taxonomic Management and Species Discovery in Tropical Forests / Christopher W. Dick and Campbell O. Webb -- Construction and Analysis of Phylogenetic Trees Using DNA Barcode Data / David L. Erickson and Amy C. Driskell -- Phylogenetic analyses of ecological communities using DNA barcode data / Nathan G. Swenson -- FISH-BOL, a case study for DNA barcodes / Robert D. Ward -- Generating plant DNA barcodes for trees in long-term forest dynamics plots / W. John Kress, Ida C. Lopez, and David L. Erickson -- Future directions / David L. Erickson and W. John Kress.
- 2014 Springer Protocolsedited by Svein Valla and Rahmi Lale.1. BioBrick assembly standards and techniques and associated software tools / Gunvor Røkke, Eirin Korvald, Jarle Pahr, Ove Øyås and Rahmi Lale -- 2. Plasmid construction by SLIC or sequence and ligation- independent cloning / Ryan E. Hill and Julian J. Eaton-Rye -- 3. Quick and clean cloning / Frank Thieme and Sylvestre Marillonnet -- 4. Hierarchical ligation-independent assembly of PCR fragments / Jonathan L. Schmid-Burgk, Zhen Xie, and Yaakov Benenson -- 5. USER-derived cloning methods and their primer design / Bo Salomonsen, Uffe H. Mortensen, and Barbara A. Halkier -- 6. Application of the restriction-free (RF) cloning for multicomponents assembly / Yoav Peleg and Tamar Unger -- 7. A single-tube assembly of DNA using the transfer-PCR (TPCR) platform / Ariel Erijman, Julia M. Shifman, and Yoav Peleg -- 8. Circular polymerase extension cloning / Jiayuan Quan and Jingdong Tian -- 9. Golden gate cloning / Carola Engler and Sylvestre Marillonnet -- 10. Design and construction of multigenic constructs for plant biotechnology using the goldenbraid cloning strategy / Alejandro Sarrion-Perdigones, Jorge Palaci, Antonio Granell and Diego Orzaez -- 11. FX cloning : a simple and robust high-throughput cloning method for protein expression / Eric R. Geertsma -- 12. Minimum GC-rich sequences for overlap extension PCR and primer annealing / Mikiko Nakamura, Ayako Suzuki, Hisashi Hoshida and Rinji Akada -- 13. Simple cloning and DNA assembly in Escherichia coli by prolonged overlap extension PCR / Chun You and Y.-H. Percival Zhang -- 14. Combinatorial assembly of clone libraries using site-specific recombination / Vanessa E. Wall, Leslie A. Garvey, Jennifer L. Mehalko, Lauren V. Procter and Dominic Esposito -- 15. Application of In-Fusion [trademark] cloning for the parallel construction of E. coli expression vectors / Louise E. Bird, Heather Rada, John Flanagan, Jonathan M. Diprose, Robert J.C. Gilbert and Raymond J. Owens -- 16. Seamless ligation cloning extract (SLiCE) cloning method / Yongwei Zhang, Uwe Werling, and Winfried Edelmann -- 17. j5 DNA assembly design automation / Nathan J. Hillson -- 18. FastPCR software for PCR, in silico PCR, and oligonucleotide assembly and analysis / Ruslan Kalendar, David Lee, and Alan H. Schulman.
- 2009 Springer Protocolsedited by Vladimir V. Didenko.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.
- 2012 Springer Protocolsedited by Antonio Alonso.An overview of DNA typing methods for human identification : past, present, and future / Robyn Thompson, Silvia Zoppis, and Bruce McCord -- Capillary electrophoresis and 5-channel LIF detection of a 26plex autosomal STR asay for human identification / Carolyn R. Hill -- Capillary electrophoresis of miniSTR markers to genotype highly degraded DNA samples / Michael D. Coble -- Interpretation guidelines of a standard Y-chromosome STR 17-plex PCR-CE assay for crime casework / Lutz Roewer and Maria Geppert -- Capillary electrophoresis of an X-chromosome STR decaplex for kinship deficiency cases / Leonor Gusmão [and others] -- A 48-plex autosomal SNP GenPlex Assay for human individualization and relationship testing / Carmen Tomas, Claus Børsting, and Niels Morling -- Typing of 49 autosomal SNPs by single base extension and capillary electrophoresis for forensic genetic testing / Claus Børsting, Carmen Tomas, and Niels Morling -- A 34-plex autosomal SNP single base extension assay for ancestry investigations / C. Phillips, M. Fondevila, and Maria Victoria Lareau -- SNaPshot® minisequencing analysis of multiple ancestry-informative Y-SNPs using capillary electrophoresis / Maria Geppert and Lutz Roewer -- Capillary electrophoresis of 38 noncoding biallelic mini-indels for degraded samples and as complementary tool in paternity testing / Rui Pereira and Leonor Gusmão -- Capillary electrophoresis of an 11-plex mtDNA coding region SNP single base extension assay for discrimination of themost common caucasian HV1/HV2 mitotype / Peter M. Vallone -- Capillary electrophoresis of a multiplex reverse transcription-polymerase chain reaction to target messenger RNA markers for body fluid identification / Cordula Haas, Erin Hanson, and Jack Ballantyne -- DNA extraction from aged skeletal samples for STR typing by capillary electrophoresis / René Huel [and others] -- Interpretation guidelines for multilocus STR forensic profiles from low template DNA samples / Zoran M. Budimlija and Theresa A. Caragine -- Interpretation guidelines for mixed-STR multilocus electrophoretic profiles / Juan Antonio Luque -- Capillary electrophoresis analysis of a 9-plex STR assay for canine genotyping / Barbara van Asch and António Amorim -- Capillary electrophoresis of DNA from Cannabis sativa for correlation of samples to geographic origin / Heather Mller Coyle -- Capillary electrophoresis of multigene barcoding chloroplast markers for species identification of botanical trace evidence / Gianmarco Ferri, Beatrice Corradini, and Milena Alù -- Capillary electrophoresis of big-dye terminator sequencing reactions for human mtDNA control region haplotyping in the identification of human remains / Marta Montesino and Lourdes Prieto -- Capillary electrophoresis of human mtDNA control region sequences from highly degraded samples using short mtDNA amplicons / Odile M. Loreille and Jodi A. Irwin -- Interpretation guidelines of mt DNA control region sequence electropherograms in forensic gnetics / Manuel Crespillo Marquez -- Capillary electrophoresis of mtDNA cytochrome b gene sequences for animal species identification / Adrian Linacre -- Sequence analysis of the canine mitochondrial DNA control region from shed hair samples in criminal investigations / C. Berger, B. Berger, and W. Parson -- Integrated sample cleanup and microchip capillary array electrophoresis for high-performance forensic STR profiling / Peng Liu [and others] -- Microchip capillary electrophoresis protocol to evaluate quality and quantity of mtDNA amplified fragments for DNA sequencing in forensic genetics / Coro Fernández and Antonio Alonso -- Microchip capillary electrophoresis of multi-locus VNTR analysis for genotyping of Bacillus anthracis and Yersinia pestis in microbial forensic cases / Andrea Ciammaruconi.
- 2013 SpringerMaria Spies, editor.Also available: Print – 2013
- 2015 Springer Protocolsedited by Benoit P. Leblanc and Sebastien Rodrigue.Electrophoretic mobility shift assay using radiolabeled DNA probes -- In vitro DNase i footprinting -- Determining the architecture of a protein-DNA complex by combining FeBABE cleavage analyses, 3-D printed structures, and the ICM molsoft program -- In cellulo DNA analysis: LMPCR footprinting -- Southwestern blotting assay -- Single-molecule approaches for the characterization of riboswitch folding mechanisms -- Probing of nascent riboswitch transcripts -- Functional studies of DNA-protein interactions using fret techniques -- Precise identification of genome-wide transcription start sites in bacteria by 5'-rapid amplification of cDNA ends (5'-RACE) -- Analysis of DNA supercoiling induced by DNA-protein interactions -- Precise identification of DNA-binding proteins genomic location by exonuclease coupled chromatin immunoprecipitation (ChIP-exo) -- The cruciform DNA mobility shift assay: A tool to study proteins that recognize bent DNA -- Individual and sequential chromatin immunoprecipitation protocols -- Chromatin endogenous cleavage (ChEC) as a method to quantify protein interaction with genomic DNA in saccharomyces cerevisiae -- Selection and validation of spacer sequences for CRISPR-Cas9 genome editing and transcription regulation in bacteria -- Detection of short-range DNA interactions in mammalian cells using high-resolution circular chromosome conformation capture coupled to deep sequencing -- Global mapping of open chromatin regulatory elements by formaldehyde-assisted isolation of regulatory elements followed by sequencing (FAIRE-seq) -- Aggregate and heatmap representations of genome-wide localization data using VAP, a versatile aggregate profiler -- Circular dichroism for the analysis of protein-DNA interactions -- Quantitative investigation of protein-nucleic acid interactions by biosensor surface plasmon resonance -- Identification of nucleic acid high affinity binding sequences of proteins by SELEX.
- 2009 Springer Protocolsedited by Tom Moss and Benoît Leblanc.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.
- 2008 Springer Protocolsedited by Christian Dahmann.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.
- 2011 Springer Protocolsedited by Seetharama D. Satyanarayanajois.Virtual screening for lead discovery / Yat T. Tang and Garland R. Marshall -- Computer-aided drug discovery and development / Shuxing Zhang -- Using active site mapping and receptor-based pharmacophore tools : prelude to docking and de novo/fragment-based ligand design / Ashutosh Tripathi, J. Andrew Surface, and Glen E. Kellogg -- Methods for evaluation of structural and biological properties of antiinvasive natural products / Mudit Mudit [and others] -- Solid-phase peptide synthesis using microwave irradiation / Justin K. Murray, Jennifer Aral, and Les P. Miranda -- Fluorescent and lanthanide labeling for ligand screens, assays, and imaging / Jatinder S. Josan [and others] -- DNA-directed assembly microarray for protein and small molecule inhibitor screening / Ng Jin Kiat [and others] -- Selection of peptide ligands for human placental transcytosis systems using in vitro phage display / Saleem Basha, Shruthi Vaidhyanathan, and GIovanni M. Pauletti -- Optimization of the tetrazolium dye (MTT) colorimetric assay for cellular growth and viability / Paul W. Sylvester -- Imaging NF-KB signaling in mice for screening anticancer drugs / Delira Robbins and Yunfeng Zhao -- Evaluation of anticancer agents using flow cytometry analysis of cancer stem cells / Vineet Gupta, Qian-Jin Zhang, and Yong-Yu Liu -- Chemical screening with zebrafish embryos / Hanbing Zhong and Shuo Lin -- iTRAQ labeling coupled with LC-MALDI mass spectrometry for monitoring temporal response of colorectal cancer cells to butyrate treatment / Hwee Tong Tan [and others] -- Heterotypic cell adhesion assay for the study of cell adhesion inhibition / Seetharama D. Satyanarayanajois, Sharon Ronald, and Jining Liu -- Evaluation of antibacterial activity of proteins and peptides using a specific animal model for wound healing / Ramar Perumal Samy [and others] -- In vitro immunogenicity risk assessment of therapeutic proteins in preclinical setting / Punett Gaitonde and Sathy V. Balu-Iyer.
- edited by Jonathan B. Chaires, Michael J. Waring.Biophysical approaches -- Chemical and molecular biological approaches -- Enzymology and biological approaches.Also available: Print – 2001
- ABCs of gene cloning. 2nd ed. — Drug-nucleic acid interactions (137)
- Ecological genomics : ecology and the evolution of genes and genomes — MicroRNA protocols. [1st ed.] (137)
- MicroRNA--basic science : from molecular biology to clinical practice — Principles of molecular medicine. 2nd ed. (137)
- Principles of virology. 3rd ed. — Yeast protocols. Third Edition. [3rd ed.] (135)
- Harrison's Principles of Internal Medicine
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Includes cited reference searching, citation maps, and an analyze tool.
Features systematic reviews that summarize the effects of interventions and makes a determination whether the intervention is efficacious or not.
Cochrane reviews are created through a strict process of compiling and analyzing data from multiple randomized control trials to ensure comprehensiveness and reliability.Provides systematic coverage of the psychological literature from the 1800s to the present through articles, book chapters and dissertations.BMJ Clinical Evidence. A clinical information tool built around systematic reviews summarizing the current state of knowledge about prevention and treatment of clinical conditions.PIER (Physicians' Information and Education Resource) is a Web-based decision-support tool designed for rapid point-of-care delivery of up-to-date, evidence-based guidance for primary care physicians.Cochrane Central Register of Controlled Trials (CENTRAL) provides access to 300,000 controlled trials that have been identified the Cochrane Collaboration.Provides drug information targeted for patients.A continually updating drug monograph.The National Guideline Clearinghouse (NGC): A comprehensive database of evidence-based clinical practice guidelines and related documents.MedlinePlus: A repository of health information from the National Library of Medicine. Links are from trusted sites. No advertising, no endorsement of commercial companies or productsLPCH CareNotes via MicroMedex: Patient education handouts customized by LPCH clinical staffMicromedex Lab Advisor: Evidence based laboratory test informationA drug database organized by generic name, trade name and drug class.LPCH / Stanford Hospital Formulary.A goldmine of trusted consumer health information from the world's largest medical library.A trusted source of expert advice for and about kids, providing the information necessary to help patients and parents understand their unique needs.Provides patient handouts from the American Academy of Family Physician.Access to the Stanford Health Library for patients.Lane provides access to over 5,000 eBooks many of which provide helpful background material that will prepare you to better tackle primary literature.
Largest, broadest eBook package; covers all sciences, as well as technology (including software), medicine, and humanities.
In addition to covering Wiley and Springer, MyiLibrary is also the only provider for Oxford and Cambridge University Press titles. No seat restrictions.A collection of biomedical books that can be searched directly by concept, and linked to terms in PubMed abstracts.
A web-based, decision support system for infectious diseases, epidemiology, microbiology and antimicrobial chemotherapy. The database, updated weekly, currently includes 337 diseases, 224 countries, 1,147 microbial taxa and 306 antibacterial (-fungal, -parasitic, -viral) agents and vaccines.
Over 10,000 notes outline the status of specific infections within each country.
Provides online, full-text access to Springer's journal titles as well as journals from other publishers.
Subjects include: life sciences, chemical sciences, environmental sciences, geosciences, computer science, mathematics, medicine, physics and astronomy, engineering and economics. Also includes eBooks.Collection of over 8 thousand fulltext titles in engineering, math, and basic and applied biomedical research. Coverage is from 1967 to the present.A library of ebooks on a wide array of topics, digitized and made available online in conjunction with the original publishers.