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GeneSpring 13.1 Training Offered December 3rd

Canceled, rescheduled January 5, 2016.

The NIH Library Bioinformatics Support Program has organized a GeneSpring 13.1 training class for December 3. This free training will be held in the NIH Library Training Room, Building 10, from 9:30 a.m. to 4 p.m., which includes Tips and Tricks from 1 to 4 p.m. Registration is required (use the link provided below).

Designed specifically for the needs of biologists, GeneSpring offers an interactive visualization and computing environment that promotes investigation and enables understanding of transcriptomics, genomics, metabolomics, and proteomics data within a biological context. GeneSpring is a data visualization and statistical analysis tool used by biologists for research and drug discovery. It analyzes data from microarrays, qPCR, NGS, and mass spectrometry. The tool enables a user to examine probes across data types, array platforms, and organisms that map to the same biological entity. GeneSpring includes GO, GSEA/GSA, and pathway analysis with interaction databases for over 20 model organisms.

The morning session will provide an introduction to GeneSpring 13.1 and highlight new features. The afternoon Tips and Tricks session will be devoted to practical applications of GeneSpring using a TCGA cancer dataset.

The goal of this training is to learn how to interpret the results from multiple experiments in a biologically meaningful manner. You will learn to:

  • Import a gene/protein list or an experiment from GEO
  • Use PCA to check quality of samples
  • Apply basic statistical tests (t-test, ANOVA Perform clustering, fold change, and pathway and GO analysis)
  • Explain the basics of GSEA/GSA
  • Export raw or normalized data, images, and projects

Tips and Tricks: Learn how to import and analyze metadata obtained from a TCGA cancer dataset. Objectives:

  • Import TCGA cancer dataset
  • Load metadata from publications
  • Apply clustering
  • Perform metadata analysis
  • Perform correlation analysis
  • Create a network from a correlated gene list

The class will be taught by GeneSpring staff and is open to NIH staff.