GenePattern

About

GenePattern combines a powerful scientific workflow platform with more than 90 genomic analysis tools. An intuitive web interface makes it easy to use.

Current version

Release: 3.1.1
Release date: 7/21/2008

Funding

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

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.

News

8/11/2008: The GenePattern Team is awarded founding membership in the caBIG™ Molecular Analysis Tools Knowledge Center. The Knowledge Center promotes the adoption of Cancer Biomedical Informatics Grid (caBIG™) technologies aiming to facilitate the discovery of the next generation of cancer diagnostics and therapeutics.

Press Releases