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Chipper: discovering transcription-factor targets from chromatin immunoprecipitation microarrays using variance stabilization

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dc.creator Gibbons, Francis D.
dc.creator Proft, Markus
dc.creator Struhl, Kevin
dc.creator Roth, Frederick P.
dc.date 2008-04-16T09:24:15Z
dc.date 2008-04-16T09:24:15Z
dc.date 2005-11-01
dc.date.accessioned 2017-01-31T01:02:26Z
dc.date.available 2017-01-31T01:02:26Z
dc.identifier Genome Biol. 2005; 6(11): R96
dc.identifier 1465-6914
dc.identifier http://hdl.handle.net/10261/3611
dc.identifier 10.1186/gb-2005-6-11-r96
dc.identifier.uri http://dspace.mediu.edu.my:8181/xmlui/handle/10261/3611
dc.description The electronic version of this article is the complete one and can be found online at http://genomebiology.com/2005/6/11/R96
dc.description Chromatin immunoprecipitation combined with microarray technology (Chip2) allows genomewide determination of protein-DNA binding sites. The current standard method for analyzing Chip2 data requires additional control experiments that are subject to systematic error. We developed methods to assess significance using variance stabilization, learning error-model parameters without external control experiments. The method was validated experimentally, shows greater sensitivity than the current standard method, and incorporates false-discovery rate analysis. The corresponding software ('Chipper') is freely available. The method described here should help reveal an organism's transcription-regulatory 'wiring diagram'.
dc.description F.D.G. and F.P.R. were supported in part by Funds for Discovery provided by John Taplin and by an institutional grant from the HHMI Biomedical Research Support Program for Medical Schools. M.P., F.D.G., and K.S. were supported by NIH/NIGMS grants GM30186, GM53720, and NIH/NHGRI grant HG003147. M.P. was supported by an EMBO Long Term Fellowship and the 'Ramón y Cajal' program of the Spanish Ministry of Science.
dc.description Peer reviewed
dc.format 68043 bytes
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dc.language eng
dc.publisher BioMed Central
dc.relation Publisher’s version
dc.rights openAccess
dc.title Chipper: discovering transcription-factor targets from chromatin immunoprecipitation microarrays using variance stabilization
dc.type Artículo


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