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Instruction Menu

Below is a list of instructional offerings from the Medical Library. To request an instruction session for your group, please contact Caitlin Meyer (caitlin.meyer@yale.edu).
Modulesort descending Learning Objectives Duration (min) Category Add-on Module
Advanced EndNote
  • Options for sharing EndNote libraries with colleagues
  • Customizing or modifying a journal output style to meet the citation requirements of a journal
  • Creating "Smart Groups" and "Groups from Groups" to search your EndNote library effectively
45 Citation Management
Advanced Literature Searching in PubMed
  • Describe the differences between MEDLINE and PubMed Central.
  • Compare and use MeSH hierarchy and subheadings
  • Identify and use field searching and automatic term mapping
  • Create NCBI alerts
  • Perform advanced searches in PubMed 
45 Literature Searching
Analyzing and Visualizing Data with Python: An Introduction to numpy and matplotlib (Python Part 2)
  • Import and use Python libraries
  • Read tabular data into Python
  • Perform basic statistical operations on the data
  • Create basic plots from the data
  • Process and plot multiple data files at once
120 Data & Programming
Asking Clinical Questions & Acquiring the Best Evidence
  • Formulate a well-built clinical question with PICO
  • Construct a concept table and literature searching strategy
  • Review levels of evidence and unfiltered vs filtered information
  • Perform a search in PubMed
45, 75 Literature Searching Additional databases (10 min each)
Before You Write the Review: How to Effectively Read and Annotate Scholarly Literature
  • Define ‘annotation,’ and explain how it applies to the research/review process
  • Take notes about key areas of a source document-- some universal and some specific to their research topic (descriptive vs. analytical annotation)
  • Explain the difference between scholarly and grey literature.
60 Literature Searching
Beyond PubMed: Expanding your research toolkit
  • Describe the scope of content in PubMed
  • Compare general and specialty academic databases
  • Leverage unique functions (searching, filtering, sorting) across platforms
  • Perform advanced searches in multiple databases
45 Literature Searching
Beyond PubMed: Searching the APA PsycInfo Database in 30 minutes
  • Formulating your question using PICO for an effective search in APA PsycInfo
  • Build a search using keywords
  • Incorporate the use of Boolean operators to connect your concepts
  • Learn to use search syntax
30 Literature Searching
Beyond PubMed: Web of Science
  • Formulating your question using PICO for an effective search in Web of Science
  • Build a search using keywords
  • Incorporate the use of Boolean operators to connect your concepts
  • Learn to use specialized search syntax specific to this database (truncation, wildcards, NEAR, etc.)
45 Literature Searching Managing your results using EndNote (30 min)
Cleaning and Transforming Data with Python: An Introduction to pandas (Python, Part 3)
  • Determine what you want to achieve with data cleaning
  • Work with pandas data structures (dataframes, series)
  • Perform routine data cleaning tasks with pandas (e.g., dealing with missing data, converting data types, cleaning up text issues, etc.)
  • Determine whether and what data transformation (e.g., grouping, subsetting, reshaping) might be needed for further analysis
120 Data & Programming
Demonstrating approaches to finding additional relevant documents
  • Decide whether and how to do citation chaining
  • Find other papers using the same instrument
  • Find other papers with similar keywords/indexing
  • Find related interim research products (preprints, grants, conference papers, code, datasets....)
30, 45, 60 Literature Searching Manage and share a library of citations (20 min)
Design Basics: How to Create Better Visuals
  • Understand the importance of colors, fonts, and layout
  • Recognize and identify common pitfalls in 'bad' graphic designs
  • Come away with a list of free graphic design tools available on the web
45 Design Photoshop Basics: How to Create a Digital Sign (30 min)
Find, Save, and Read Global Health Literature Like a Pro
  • Explain the difference between scholarly and grey literature, and devise search strategies to find both kinds of information (pertaining to a global health research interest).
  • Download and add a citation to Zotero or EndNote.
  • Take notes about key areas of a source document.
60 Literature Searching
Foundations of Critical Appraisal of Evidence
  • Define the goals of critical appraisal
  • Explore common tools for assessing evidence
  • Practice appraising a randomized controlled trial
45 Literature Searching
Foundations of Evidence-based Practice Tools
  • Write a well-built clinical question and transform it into a search strategy
  • Utilize different strategies and tools for highly precise literature searching
  • Compare and contrast searching the primary literature vs evidence-based practice mobile applications
  • Critically engage with search results
45, 60, 75 Literature Searching
Fulfilling New Data Management & Sharing Expectations: The New NIH Policy and Beyond
  • Understand the main components of the NIH Data Management and Sharing Policy (launched January 2023), plus additional related policies
  • Describe how to write and submit data management and sharing plans, with an emphasis on complying with NIH guidelines
  • Compare and evaluate various strategies for managing and sharing data, including data standards and data repositories


60 Data & Programming
Getting Started with HTML and CSS
  • Basic understanding of HTML/CSS and how it's used to create websites
  • The process for creating a rudimentary webpage
  • How to style the webpage using CSS declarations
45 Data & Programming
Getting Started with Python: An Introduction to Programming (Python Part 1)
  • Write your first program (“Hello, world!”, printing) 
  • Deal with mistakes (error handling)
  • Work with text and numbers (strings, integers, floats, variables, assignment, concatenation)
  • Store lots of numbers and/or text (lists, dictionaries)
  • Integrate conditions and repetition into code (if-else statements, loops)
  • Combine above elements together in a final mini project
120 Data & Programming
Grant Reporting, Compliance and Application (biosketch) through MyNCBI
  • Ccreate MyNCBI account and how to link it to the eRA Commons account
  • Delegate your account
  • Populate and manage My Bibliography
  • Use My Bibliography for grant reporting/compliance
  • Use SciENcv to create different biosketches (from scratch, from external source, etc)
  • Create an ORCID ID and link it to SciENcv
60 Scholarly Communication
Grey (Lit) Matters
  • Define grey literature
  • Evaluate search strategies for grey lit
  • Identify grey lit databases and their appropriate use
  • Assess and demonstrate use of Advanced Google and Custom Searches
30 Literature Searching
Hacking Your Research with Medical Subject Headings (MeSH terms)
  • Identify potential collaborators or mentors at Yale
  • Quickly locate relevant literature 
  • Use known articles to find additional literature to inform your work
45 Literature Searching
Identifying Quality Sources of Information
  • Learn to recognize factors that may indicate a journal is predatory.
  • Identify trustworthy indexing sources.
  • Learn to use tools to match a research topic to a journal.
  • Understand the difference between PubMed and PMC.
45, 60, 75 Literature Searching
Introduction to Annotation of Gene Expression Data
  • Learn basic concepts/vocabulary for transcriptomics analysis.
  • Find the right assembly or reference genome to use in their analysis
  • Different types of genomic annotations and what tools using to annotate datasets
  • Use Enbsembl Biomart and NCBI datasets, and other tools to batch annotate lists
120 Bioinformatics
Introduction to Functional Analysis of Omics Data: Gene Set Enrichment Analysis (GSEA)
  • Prepare your data and files for running GSEA
  • Learn about Molecular Signature Database (MSigDB)
  • Run GSEA analysis and the Leading edge analysis and results interpretation
  • Send and visualize the results using the Enrichment Map app
120 Bioinformatics
Introduction to Functional Analysis of Omics Data: Overrepresentation Analysis (ORA) using public online tools
  • Understand the components of an ORA: gene list, cutoffs, background, or reference set, etc
  • Explore statistical vs biological (or study) results 
  • Visualize and present results
120 Bioinformatics
Introduction to Genome Browsers. Part 1 Ensembl
  • Learn the basic functionalities and navigation of Ensembl by using specific examples
  • Annotate omics data using BioMart interface
  • Retrieve data and information from the browser
120 Bioinformatics
Introduction to Genome Browsers: Part 2 UCSC Genome Browser
  • View gene structure and retrieve sequences
  • Add and remove tracks
  • Explore phenotype and literature track
  • Find and retrieve variation data
  • Find and retrieve genes located in a genomic region
120 Bioinformatics
Library Orientation
  • Identify library services and resources
  • Summarize ways to access the library
  • Recall steps to connect to resources off-campus
  • Describe the role of the library as it relates to your work/education
15, 30, 45, 60, 75 Orientation
Literature Searching for Health Professions Education (HPE) Scholarship
  • Discuss how HPE  scholarship differs from other forms
  • Frame and create an answerable HPE research question 
  • Identify essential resources to query for HPE searches
  • Search using controlled vocabulary and/or keywords 
  • Evaluate results
45, 60 Literature Searching Managing your results using EndNote (30 min)
Making Sense of Genomic Variation: Part 1 SNP Annotation
  • Learn how to annotate variations using dbSNP, Online Mendelian Inheritance in Man, GWAS Catalog, EBI-Ensembl Variant Effect Predictor
120 Bioinformatics
Managing Citations and Manuscripts with EndNote
  • Build and organize an EndNote library with references from various resources
  • Locate article PDFs efficiently with Find Full Text
  • Integrate EndNote into Microsoft Word for easy manuscript formatting
45 Citation Management Comparison to other citation management tools (15 min)
Managing Research Data
  • Articulate why research data management is important, and how it can improve your project
  • Understand best practices in research data management
  • Learn how to write a data management plan (DMP)
90 Data & Programming
Medical Research in the News
  • Identify news coverage of and social media reaction to biomedical research
  • Compare popular and scholarly discourse
  • Cite grey literature
  • Evaluate grey literature
15, 30 Literature Searching
My Bibliography and SciENcv: Grant reporting, compliance and biosketch through MyNCBI
  • How to create MyNCBI account and how to link it to the eRA Commons account
  • How to delegate your account
  • How to populate and manage My Bibliography
  • How to use My Bibliography for grant reporting/compliance
45 Scholarly Communication
Network Analysis of Omics Data with Cytoscape
  • Create networks from file, importing networks from public databases
  • Merge networks, grouping nodes
  • Visualize expression (e.g. transcriptomics, proteomics) data on networks
  • Find and download applications
  • Use MetScape for visualization and interpretation of metabolic and expression profiling data 
120 Bioinformatics
Photoshop Basics: How to Create a Digital Sign
  • Explore basic Photoshop tools and capabilities
  • How to insert an image, overlay text, and adjust for readability
  • Export a file suitable for a digital sign
45 Design
Research Impact Basics
  • Distinguish between author impact, article impact, and journal impact
  • Identify common metrics used to gauge impact
  • Use key tools to track, measure, and visualize research impact
  • Deploy strategies to increase your personal impact
30 Scholarly Communication
Searching MEDLINE on the Ovid Platform
  • Formulating your question using PICO for an effective search in Ovid
  • Build a search using MeSH terms and keywords
  • Incorporate the use of Boolean operators to connect your concepts
  • Learn to use specialized search syntax (truncation, wildcards, adj)
45 Literature Searching Managing your results using EndNote (30 min)
Searching with Google and Google Scholar for the Health Sciences
  • How to Search Google effectively and precisely
  • How to use advanced search features and tools
  • How to evaluate your results
45 Literature Searching Managing your results using EndNote (30 min)
Visualizing Information: Designing Effective Posters and Figures
  • Learn the basic principles of assembling an academic poster including recommendations for font, layout, and color usage
  • Learn the basic principles of creating academic figures and visualizations to represent data, including analysis of various examples
  • Understand pre-work required before creating figures and visualizations
  • Discover free tools, resources, and support for creating the best representation of your research
45 Design Data Processing and Cleaning: A Brief Overview & Tutorial (20 min); Preserving Your Information: A Brief Tutorial on Repository Deposits (10 min)
What Does it Mean to Publish My Work ‘Open Access’?
  • Explain what open access means, and what OA incentives exist at Yale to a friend.
  • Use web tools/platforms such as DOAJ, OSF, and EliScholar to find information about an OA journal or upload their work to preprint server/repository, respectively.
  • Recall policy changes of the NIH and OSTP that encourage openness of taxpayer-funded research— past, present & forthcoming (i.e. NIH Public Access Mandate, 2008 & OSTP Memo, effective 2025).
60 Scholarly Communication
Where Are You Going to Put That? How to Share Your Data
  • Find and select data repositories
  • Prepare your data for deposit
  • Share data for maximum reuse
60 Data & Programming
Where in the World is the Data You Need? How to Find and Reuse Data
  • Articulate data needs based on a research question
  • Locate and appraise datasets
  • Examine real-world data 
60 Data & Programming
Zotero in 30 minutes
  • Build and organize a Zotero library with references from various resources
  • Locate article PDFs efficiently 
  • Integrate Zotero into Microsoft Word and Google Docs for easy manuscript formatting 
30 Citation Management