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A Protocol for Using Gene Set Enrichment Analysis to Identify the Appropriate Animal Model for Translational Research
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JoVE Journal Biology
A Protocol for Using Gene Set Enrichment Analysis to Identify the Appropriate Animal Model for Translational Research

A Protocol for Using Gene Set Enrichment Analysis to Identify the Appropriate Animal Model for Translational Research

DOI:
10.3791/55768-v

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09:35 min

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August 16, 2017

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, , , , ,
1Department of Experimental Toxicology and ZEBET,German Federal Institute for Risk Assessment (BfR), 2Department of Clinical Pharmacology and Toxicology,Charité-Universitätsmedizin Berlin

Chapters

  • 00:05Title
  • 00:54Performing the Game Set Enrichment Analysis (GSEA)
  • 05:46Comparing the GSEA Results and Identifying the Optimal Animal Model
  • 07:55Results: Overlap of Pathway Regulation Identifies Suitable and Unsuitable Animal Models
  • 08:49Conclusion

Summary

Automatic Translation

Automatic Translation

We provide a standardized protocol for the use of gene set enrichment analysis of transcriptomic data to identify an ideal mouse model for translational research.
This protocol can be used with DNA microarray and RNA sequencing data and can further be extended to other omics data if data are available.

Tags

Keywords: Gene Set Enrichment AnalysisAnimal ModelTranslational ResearchGenome DataMouse ModelsInflammatory DiseasesGene Expression StudiesGene Expression DataPhenotype FileMolecular Signature DatabaseDNA Chip AnnotationsGSEA SoftwareGene SymbolsPermutations

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