A distance difference matrix approach to identifying transcription factors that regulate differential gene expression.
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ABSTRACT:
SUBMITTER: De Bleser P
PROVIDER: S-EPMC1929144 | biostudies-literature | 2007
REPOSITORIES: biostudies-literature
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A distance difference matrix approach to identifying transcription factors that regulate differential gene expression.
De Bleser Pieter P Hooghe Bart B Vlieghe Dominique D van Roy Frans F
Genome biology 20070101 5
We introduce a method that considers target genes of a transcription factor, and searches for transcription factor binding sites (TFBSs) of secondary factors responsible for differential responses among these targets. Based on the distance difference matrix concept, the method simultaneously integrates statistical overrepresentation and co-occurrence of TFBSs. Our approach is validated on datasets of differentially regulated human genes and is shown to be highly effective in detecting TFBSs resp ...[more]
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