GenePattern is a powerful genomic analysis platform that provides access to hundreds of tools for gene expression analysis, proteomics, SNP analysis, flow cytometry, RNA-seq analysis, and common data processing tasks. A web-based interface provides easy access to these tools and allows the creation of multi-step analysis pipelines that enable reproducible in silico research. We propose to deploy a GenePattern server on XSEDE infrastructure to provide advanced genomic methods and workflows on high-performance compute architecture. This project will help to commoditize the analysis of very large genomic datasets and disseminate both novel approaches and industry standard methods to a wide audience of researchers.

Reich M, Liefeld T, Gould J, Lerner J, Tamayo P, Mesirov JP. GenePattern 2.0 Nature Genetics 38 no. 5 (2006): pp500-501

genepattern-team@broadinstitute.org

http://software.broadinstitute.org/cancer/software/genepattern/

cyoun

Researchers should cite this work as follows:

• (2024), "GenePattern," https://sciencegateways.org/resources/genepattern.

  BibTex | EndNote

1. ACCESS-CI
2. genepattern
3. NCGAS
4. RNA-seq analysis
5. SNP