ModuleFinder: A Tool for Computational Discovery of Cis Regulatory Modules

@article{Philippakis2005ModuleFinderAT,
  title={ModuleFinder: A Tool for Computational Discovery of Cis Regulatory Modules},
  author={Anthony A. Philippakis and Fangxue Sherry He and Martha L. Bulyk},
  journal={Pacific Symposium on Biocomputing. Pacific Symposium on Biocomputing},
  year={2005},
  pages={519-30}
}
Regulation of gene expression occurs largely through the binding of sequence-specific transcription factors (TFs) to genomic binding sites (BSs). We present a rigorous scoring scheme, implemented as a C program termed "ModuleFinder", that evaluates the likelihood that a given genomic region is a cis regulatory module (CRM) for an input set of TFs according to its degree of: (1) homotypic site clustering; (2) heterotypic site clustering; and (3) evolutionary conservation across multiple genomes… CONTINUE READING

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Technical Report no

R. W. Irving, L. Love
TR - 2001082 of the Computing Science Department of Glasgow University • 2001

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