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Bioinformatics Advance Access published online on January 17, 2007
Bioinformatics, doi:10.1093/bioinformatics/btl641
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© The Author (2007). Published by Oxford University Press. All rights reserved. For Permissions, please email: journals.permissions@oxfordjournals.org

CoCo: A web application to display, store and curate ChIP-on-chip data integrated with diverse types of gene expression data.

Charles Girardot 1,*, Oleg Sklyar 2, Sophie Grosz 1, Wolfgang Huber 2 and Eileen E. M. Furlong 1

1European Molecular Biology Laboratory, D-69117 Heidelberg, Germany
2European Bioinformatics Institute, European Molecular Biology Laboratory, Cambridge CB10 1SD, United Kingdom

*To whom correspondence should be addressed. Charles Girardot, E-mail: charles.girardot{at}embl.de


  Abstract

Motivation: CoCo, ChIP-On-Chip Online, is an open-source web application that supports the annotation and curation of regulatory regions and associated target genes discovered in ChIP-on-chip experiments. CoCo integrates ChIP-on-chip results with diverse types of gene expression data (expression profiling, in situ hybridisation) and displays them within a genomic context. Regulatory relationships between the transcription factor-bound regions and putative target genes can be stored and expanded throughout different sessions.

Availability: http://furlonglab.embl.de/methods/tools/coco

Associate Editor: John Quackenbush

Received on July 27, 2006; revised on November 17, 2006; accepted on December 15, 2006

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