Lane Medical Library

Video & Tutorials

Bioresearch

  • Cool Informatics Tools and Services for Biomedical Research

    VIEW: YouTube

    With Dr. David Ruau | Aug 2012

    YOU WILL LEARN

    • An overview of next generation biomedical research tools
    • Analyze your RNA-seq data with a point and click interface
    • Determine protein-protein interactions with a few clicks of a mouse
    • Analyze public microarrays without typing ANY code
    • Cleaning up your data
    • About the best digital tools for your biological experiments
    • How to produce the nice graphics you see in all those cool papers

    Handout: PDF

OPEN KNOWLEDGE

  • Publishing Game-Changer: Open Access

    VIEW: YouTube

    with John Willinsky, Khosla Family Professor of Education at Stanford University; Director of the Public Knowledge Project | February 2013

    YOU WILL LEARN

    A presentation on the two-decade rise of open access publishing models, setting out the open access story of global impact, top-ranked journals, fee and no-fee journals, mega-journals, academic freedom and scholar-publishers, and, yes, "predatory OA publishers." John Willinsky has been studying this opening of research and scholarship for the last fifteen years, while actively contributing to its development.

  • Open Access Panel Discussion - October 25, 2011

    VIEW: YouTube

    Moderated by Heidi Heilemann; Assoc. Dean for Knowledge Management | October 2011

    YOU WILL LEARN

    • How publishing in OA journals will enhance the impact of your research
    • That the perception that OA journal peer-review processes are weak is a myth
    • The reality of impact factors for OA and non-OA journals
    • Alternatives for covering the costs of publishing your paper in an OA journal
    • Your rights as the author of an article in OA vs. traditional journals
  • Stanford Digital Repository

    VIEW: YouTube

    with Mimi Calter, University Librarian & Chief of Staff | November 2012

    YOU WILL LEARN

    • Joined by Tom Cramer, libraries' Chief Technology Strategist & Amy Hodge, Science Data Librarian.
    • Learn more about the Stanford Digital Repository [SDR]
    • Current options for depositing in the system, data preservation and security
    • Tools for access
    • Future plans for the SDR and for data storage at Stanford
  • Learning in the Wild: What Open Learning Could Mean for Teaching

    VIEW: YouTube

    with Amy Collier, Director for Technology & Teaching, Office of the Vice Provost for Online Learning | November 2012

    YOU WILL LEARN

    • For many in higher education, the topic of open learning prompts questions of the opportunities and limitations offered by educational and online technologies.
    • An outline these opportunities and limitations as they relate to core functions in Stanford's mission.
    • What Stanford is currently doing with online learning and areas ripe for faculty exploration.
  • Trends and Emerging Issues Relating to Open Access, Open Data

    VIEW: YouTube

    with Lauren Schoenthaler, Senior University Counsel, Stanford University | November 2012

    YOU WILL LEARN

    • Issues related to a variety of "open" initiatives and their potential impact on Stanford faculty, staff and students.
    • Stanford author rights in an era of openness.
    • Options for Stanford researchers when submitting articles to journals, and how to negotiate for open access to materials.
    • How "open" should data be; data security and privacy.

Presentations, Posters, and Images

  • Good PowerPoint Presentations for Classroom and Streaming Video

    DOWNLOAD: PDF

    by The IRT EdTech Team| April 2010

    YOU WILL LEARN

    • Best practices for PowerPoint Presentations for a classroom setting.
  • Optimizing Large PDF Files

    VIEW: HTML

    by Olya Gary | February 2011

    YOU WILL LEARN

    • How many PDFs carry excessive weight that slow down PDF performance.
    • To audit the PDF file first to see which elements are significantly large.
    • To create the smallest possible PDF for faster web delivery and retain a good office printing quality.
  • The Power of the Image: Using Visuals to Think and Communicate about Science (1 hr. 57 min.)

    VIEW: Quicktime
    VIEW: YouTube

    Betsy Palay, MS | September 2011

    YOU WILL LEARN

    • How to think and communicate about science using visual techniques

SCHOLARLY COMMUNICATIONS

  • Article Level Metrics: A New Approach to Assessing the Value of Your Publications

    VIEW: YouTube

    with Jennifer Lin, Product Manager, PLoS | August 2012

    YOU WILL LEARN

    • To focus on the scientific value of patent databases rather than legal issues.
    • How to get access to SciFinder and Derwent Innovations Index for free courtesy of the Swain and Lane libraries.
    • Discover how the Swain and Lane libraries can download entire patents for you for free.

SEARCHING: (PubMed, patents)

  • Patent Data: What You Don’t Know Will Cost You

    VIEW: YouTube

    with Lane Librarian | March 2008

    YOU WILL LEARN

    • To focus on the scientific value of patent databases rather than legal issues.
    • How to get access to SciFinder and Derwent Innovations Index for free courtesy of the Swain and Lane libraries.
    • Discover how the Swain and Lane libraries can download entire patents for you for free.

STATISTICS, DATA MANAGEMENT, & PROGRAMMING (R Programming, SAS, etc.)

  • Introduction to R Programming Part 1 and Part 2

    VIEW Pt 1: YouTube
    VIEW Pt 2: YouTube

    with David Ruau, PhD| August 2012

    By the end of parts 1 & 2, participants will be able to:

    • Interact with R using commands passed through the console
    • Import and export data in various formats and transform those data in R
    • Make statistical graphics plots (and more)
    • Write small scripts and functions using the R language.
  • Using R for Graphics Programming: An Introduction Using a Point-and-Click Interface

    VIEW: Quicktime
    VIEW: YouTube

    with Ray Balise | August 2011

    YOU WILL LEARN

    • how R functions work
    • how to generate common univariate and multivariate graphics
    • how to do analyses on subsets
    • how to do multi-panel plots
    • commonly used Graphic Display Parameters
    • setting custom colors
    • exporting pretty graphics into PDFs and other graphics formats
  • Using R for Statistics and Graphics: An Introduction for Busy Non-programmers

    with Ray Balise | July 2011

    YOU WILL LEARN

    • recognize files that R can easily understand
    • make readable Excel files
    • use Excel to get data ready for analysis
    • add a point-and-click system to R
    • load data into R with a point-and-click system or with code
    • do descriptive statistics and graphics with code generated from a point-and-click system
    • write an R program
  • Using R with REDCap: An Introduction to Secure Data Collection and Analysis

    with Ray Balise | August 2011

    YOU WILL LEARN

    • access REDCap from on or off campus
    • create an online survey for subject recruitment
    • create a database to hold data from a research study
    • do basic summary statistics in REDCap
    • load REDCap data into R
    • use R with a point-and-click interface to do basic statistics on data originating in REDCap
  • Using SAS with REDCap: An Introduction to Secure Data Collection and Analysis

    with Ray Balise | August 2011

    YOU WILL LEARN

    • access REDCap from on or off campus
    • create an online survey for subject recruitment
    • create a database to hold data from a research study
    • do basic summary statistics in REDCap
    • load REDCap data into SAS
    • SAS and basic statistics on data originating in REDCap

WRITING: (NIH Grant, Biomedical Manuscript)

  • How Journal Editors Decide: Behind the Scenes at Annals of Internal Medicine

    VIEW: YouTube

    with Harold C. Sox, M.D | Jun 2011

    YOU WILL LEARN

    • Dr. Harold Sox will describe how Annals of Internal Medicine evaluated manuscripts, made publishing decisions, and worked with authors to assure transparency and accuracy in their articles.
    • You will gain valuable understanding of how journal editors look at manuscripts and ways in which authors can increase their chances for acceptance.
  • Writing for Career Development Awards (K Awards) 90:00 min.

    VIEW: QuickTime

    with Dr. Christopher Dant | Nov 2011

    YOU WILL LEARN

    • Examine different NIH training and career development programs.
    • Find out how programs are tailored to individuals at different points in their career.
    • Get an overview of how to write a competitive K award.

    Course Description

    Career Development Awards (K awards) are one of the most successful NIH programs and have helped launched many productive investigator careers. Over the past 5 years, K award funding has steadily increased NIH-wide, and in 2010, overall K award success rates were 35% across all institutes. However, many investigators often miss these funding opportunities because they are not aware of the kinds of career awards available or what's expected of the trainee in securing an award.

    Course Materials and Resources

    Lecture Slides: NIH Career (K) Development Programs

  • Writing the New NIH Grant: A Systematic and Proven Approach to Grantsmanship

    VIEW: QuickTime

    with Dr. Christopher Dant | Jun 2011

    YOU WILL LEARN

    • To explore the new "Enhancing Peer Review" guidelines for grant structure and content.
    • Present a proven and systematic strategy for writing an NIH grant to increase chance of success.
    • Strategy valuable to investigators writing grants for many of the private foundation that sponsor medical research.
  • Writing the Biomedical Manuscript: The Journal Editor's Perspective

    VIEW: QuickTime

    with Dr. Christopher Dant | Jun 2011

    YOU WILL LEARN

    • To examine the essentials of creating the peer-reviewed biomedical manuscript from the point of view of journal editor.
    • What constitutes a good (and bad) manuscript and how to improve construction skills.
    • Utilize a structured, proven approach for manuscript sections and clear writing for both inexperienced and experienced writers.
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