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Bioinformatics Advance Access originally published online on August 18, 2005
Bioinformatics 2005 21(20):3933-3934; doi:10.1093/bioinformatics/bti637
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Published by Oxford University Press 2005

ORIOGEN: order restricted inference for ordered gene expression data

S. Peddada 1,*, S. Harris 2, J. Zajd 2 and E. Harvey 2

1Biostatistics Branch, National Institute of Environmental Health Sciences Durham, NC 27713, USA
2Constella Group, LLC Durham, NC 27713, USA

*To whom correspondence should be addressed.

Summary: ORIOGEN is a user-friendly Java-based software package for selecting and clustering genes according to their profiles across various treatment groups. In particular, ORIOGEN is useful for analyzing data obtained from time-course or dose–response type experiments.

Availability: The ORIOGEN software can be downloaded freely from http://dir.niehs.nih.gov/dirbb/oriogen/index.cfm

Contact: peddada{at}niehs.nih.gov (for statistical questions) and oriogen{at}constellagroup.com (for software support)

Supplementary information: ORIOGEN has a full set of help files. Also, an example input file is provided with the download.

Received on June 1, 2005; revised on August 15, 2005; accepted on August 16, 2005

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