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Course Catalog

Below are topic or subject areas taught by the NIH Library. Click the topic to see a list of upcoming classes or other related content. To view our full training catalog, visit the library training calendar. We are open to your feedback and suggestions related to our training program. Please suggest a class if you do not see it listed.

NIH Library classes are taught in-person in the NIH Library training rooms, Building 10, Clinical Center, near the South Entrance or virtually. In addition to classes, self-paced online tutorials are available through a variety of vendors and our library staff.

 

  • For the Advanced Training, topics covered depend upon survey results: find key hubs using over-connectivity analysis; using Microarray repository for gene comparisons against public data; building networks with MetaCore; constructing your own pathway maps; performing toxicogenomic analysis in MetaCore; analyzing and building networks with miRNA and mRNA data; analyzing multi-omics data (RNA-seq, proteomics, metabolomics, etc).

    Training Category: Bioinformatics Classes
  • For the Introductory Training we will cover basic topics such as: MetaCore overview; how to use MetaCore as a knowledge mining tool; how to upload data; running functional enrichments and exploring pathway maps; and running workflows.

    Training Category: Bioinformatics Classes
  • QIAGEN’s CLC Genomics Workbench enables researchers to analyze Next Generation Sequencing (NGS) data without the use of command line and is a powerful tool for processing microbial data.  In this workshop students will explore how the Microbial Genomics Module can be utilized for taxonomic profiling of sample microbiomes using both amplicon and whole metagenome sequencing data, including generating statistical results and visualizations. The workflows for de-novo genome assembly and annotation will also be presented.

    Training Category: Bioinformatics Classes
  • The class will start with an overview of Partek Genomics Suite with Pathway and followed with training with Illumina 450K Methylation array data. The workflow can also be used on HumanMethylation27 (27K) and Human MethylationEPIC (850K) BeadChips. Students will learn how to perform QA/QC, detect differential methylation, find genes overlapping CpG loci and biological interpretation as well as other basic analysis in Partek Genomics Suite with Pathway.

    For example: import data from Illumina methylation array in .idat files; methylation array-specific normalization; perform QA/AC; detection of differentially methylated CpG loci; creating list of loci of interest; identifying methylation signatures; find overlapping genes; biological interpretation; visualization (PCA; Dot plot; Hierarchical clustering; Pathway). Benefits: Acquire working knowledge of tools available to NIH researchers for Microarray Methylation data analysis.

    Training Category: Bioinformatics Classes
  • Many applications in bioinformatics and portfolio analysis require access to large numbers of publication records but retrieving these records through web interfaces can be challenging and time-consuming. Application programming interfaces, or APIs, offer an automated method of retrieving such data sets and parsing them into useable formats for analysis. This course offers a hands-on introduction to APIs in the R programming language. Participants will learn how to set up access to PubMed and Scopus APIs in R and use these APIs to retrieve, parse, and analyze publication data from PubMed and Scopus. Note: This course assumes that you already have a basic understanding of R and RStudio.

  • NCI Cancer Research Data Commons (CRDC) provides access to large-scale datasets such as The Cancer Genome Atlas (TCGA) that span multiple data types, including genomics, proteomics, imaging, and clinical data. The CRDC offers bioinformatics tools directly in the cloud, thus eliminating the need to download and store large-scale datasets. The cloud also offers greater computational capacity to manage big data analysis, further accelerating research and promoting new discoveries. The training session will provide an overview of NCI CRDC and highlight several research studies to show the utility of the CRDC and its resources. In addition, there will be hands-on training on one of the following platforms: the NCI Cloud Resource platform Seven Bridges’ Cancer Genomics Cloud (SB-CGC), Broad Institute’s FireCloud, or the Institute for Systems Biology’s Cancer Genomics Cloud (ISB-CGC) for prospective users.

    Training Category: Bioinformatics Classes
  • In this training, the attendees will learn how advanced pathway and network biology algorithms from the Computational Biology Methods for Drug Discovery (CBDD) toolkit can be applied to a broad range of OMICs datasets without the need for scripting skills. The instructor will provide use cases including disease mechanism reconstruction, drug mechanism of action elucidation, target discovery, biomarker identification, and integration of omics datasets. This class would be useful to clinicians and researchers/scientists in digging deep on the association of diseases, biomarkers, and drugs.

    Training Category: Bioinformatics Classes
  • This class will provide an overview of NIH Library services and information resources for HHS staff. By the end of this class, participants will be able to demonstrate how to access/login to the NIH Library online; describe available information resources for HHS staff; describe how to access online journals and access full text articles and access/search databases; demonstrate how to order articles and other documents; and discuss additional services available for HHS staff including manuscript preparation, document editing, and literature searching.

  • This class will provide an overview of NIH Library services and information resources for NIH staff. By the end of this class, participants will be able to demonstrate how to remotely access/login to the NIH Library online; describe available information resources for NIH staff; describe how to access online journals and access full text articles and access/search databases; demonstrate how to order articles and other documents; and discuss additional services available for NIH staff including manuscript preparation, document editing, and literature searching.

  • In this 90-minute session, participants will learn to improve and optimize their MATLAB code to boost execution speed by orders of magnitude. The course covers common pitfalls in writing MATLAB code, explores the use of the MATLAB Profiler to find bottlenecks, and introduces the use of Parallel Computing Toolbox. The course also addresses: vectorization and best coding practices in MATLAB; incorporating compiled languages, such as C, into MATLAB applications; utilizing additional hardware, such as multicore processors and GPUS to improve performance; as well as scaling up to a computer cluster, grid environment or cloud. This session is for beginners through experienced; no software installation required. 

    Training Category: Data Services Classes
  • In partnership with the NIH Clinical Center's Biostatistics and Clinical Epidemiology Service (BCES), the NIH Library is offering a class geared to cover the general concepts behind common statistical tests. This session will help participants to better understand and prepare data, interpret results and findings, design and prepare studies, and better understand the results in published literature.

    Training Category: Data Services Classes
  • In partnership with the NIH Clinical Center's Biostatistics and Clinical Epidemiology Service (BCES), the NIH Library is offering a class geared to cover the general concepts behind common statistical tests. This two-part lecture series will help participants better understand and prepare data, interpret results and findings, design and prepare studies, and understand the results in published literature.

    Part 1 will address considerations for the choice of statistical tests including the importance of study design and hypothesis, type of data and their distributions, and provide a brief review of important statistical features. During the class, time will be devoted to questions from attendees and references will be provided for in-depth self-study.

    Although you may attend only one part of this series, attending both parts will give you a better understanding of the most used statistical tests in the biomedical literature. You must register separately for Part 2 of this class series.

    Training Category: Data Services Classes
  • In partnership with the NIH Clinical Center's Biostatistics and Clinical Epidemiology Service (BCES), the NIH Library is offering a class geared to cover the general concepts behind common statistical tests. This two-part lecture series will help participants better understand and prepare data, interpret results and findings, design and prepare studies, and understand the results in published literature.

    Part 2 will describe the basic concepts for using common statistical tests such as Chi-square, paired and two-sample t-tests, ANOVA, correlations, simple and multiple regression, logistic regression, and some nonparametric tests. During the class, time will be devoted to questions from attendees and references will be provided for in-depth self-study.

    Although you may attend only one part of this series, attending both parts will give you a better understanding of the most used statistical tests in the biomedical literature. You must register separately for Part 1 of this class series.

    Training Category: Data Services Classes
  • This introductory class will provide an overview of patent search tools, with a focus on search and analysis options in a variety of patent databases: Espacenet, Google Patents, PATENTSCOPE, Derwent Innovations Index, and Lens.org. During this session, the instructor will review patent search concepts including patent families, patent classification systems, and kind codes. Chemical structure and genetic sequence search options will also be covered.

  • The training will overview the current status of pathway tools, with focus on software available to NIH community.  It will discuss the biological interoperation of mutation and expression data in the context of pathways, pathway databases, and popular web-based pathway tools. The pathway software GSEA, g: Profiler, and PATHVIEW will be used to demonstrate how to run the pathway analysis of expression data against GO (Gene Ontology), KEGG (Kyoto Encyclopedia of Genes and Genomes), and MSigDB (Molecular Signatures Database).

    Training Category: Bioinformatics Classes
  • Learn how you can promote your scholarly output using an ORCID iD, a permanent identifier for researchers, and Publons, a site to help track your publications and your peer review work for journals. NIH encourages everyone who is engaged in research, grants, and research education to create an ORCID iD. Using ORCID and Publons together enables researchers to highlight their scholarly work more effectively. This class will review resources and best practices for creating ORCID and Publons profiles that can be included in your CV, grant applications and bio to increase the visibility of your scholarly activities.

    Training Category: Writing and Editing Classes
  • Learn how you can promote your scholarly output using an ORCID iD, a permanent identifier for researchers, and Publons, a site to help track your publications and your peer review work for journals. NIH encourages everyone who is engaged in research, grants, and research education to create an ORCID iD. Using ORCID and Publons together enables researchers to highlight their scholarly work more effectively. This class will review resources and best practices for creating ORCID and Publons profiles that can be included in your CV, grant applications and bio to increase the visibility of your scholarly activities.

  • This one-hour introductory class provides researchers with an overview of online resources for locating research datasets, data repositories, and data publications for data sharing and re-use. Participants will learn search strategies for locating datasets through federated data search portals and generalist data repositories, including directories for locating discipline-specific and institutional data repositories. An overview of key issues to consider when re-using datasets or when locating a data repository for sharing and preservation purposes will be discussed.

    Training Category: Data Services Classes
  • This class will provide an overview of databases and author profile websites to help locate experts in a research field. During this session, the instructor will review how to use tools to locate authors related to a specific topic, find algorithmically generated author profiles, and how to find author-maintained profiles. The instructor will also share how to identify additional citation and publication metrics for authors using InCites, including international and industry collaborations, first and last author positions, number of publications in high-impact journals, and more. The class will also address how to identify potential conflicts of interest when locating potential reviewers for grants and contracts. 

  • Have you questioned why there is more than one database available through the NIH Library? Not sure which database best addresses your needs? This webinar provides an overview and an in-depth description and comparison of the major databases available to NIH researchers, including Web of Science, PubMed, and Scopus.  Join this class which will outline the strengths and provide a comparison of the databases. By the end of the class, you will have a better understanding of the databases, and when and how to use them. Additionally, we will share how to optimize the results of your search(es) using EndNote.