GenePattern

About

GenePattern combines a powerful scientific workflow platform with more than 90 computational and visualization tools for the analysis of genomic data.

News

The GenePattern Team is awarded founding membership in the Molecular Analysis Tools Knowledge Center. The mission of the Knowledge Center is to promote the adoption of Cancer Biomedical Informatics Grid (caBIG&trade) technologies aiming to facilitate the discovery of the next generation of cancer diagnostics and therapeutics.

Analyses

Gene Expression Analysis: Standard and novel clustering, prediction, and marker selection methodologies.
Proteomics: Peak detection, noise subtraction, peak matching, and more for advanced analysis of MALDI, SELDI, and LC-MS data.
SNP Analysis: Analyze SNP microarrays using normalization, copy number estimation, smoothing, LOH determination, and visualization.
Data Format Conversion: Import and export data, normalize and filter data, convert gene identifiers, and more.

Features

Public Server: Run analyses using the GenePattern public server.
Analysis Pipelines: Create analysis workflows by chaining tasks together.
Reproducible Research: Ensure that all versions of an analysis are available and its results are reproducible.
Programming Environment: Call any GenePattern module from Java, MATLAB, or R.

Awards

GenePattern is a winner of the Editor's Choice award for the 2005 BioIT World Best Practices competition.

Citation

Cite Genepattern:
Reich M, Liefeld T, Gould J, Lerner J, Tamayo P, Mesirov JP (2006) GenePattern 2.0 Nature Genetics 38 no. 5 (2006): pp500-501 doi:10.1038/ng0506-500.

Current version

Release: 3.1.1 New!
Release date: 7/21/2008

Funding

Funded by the National Cancer Institute, National Institute of Health, and NIGMS.