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CLARE: Cracking the LAnguage of Regulatory Elements.

ABSTRACT:

Unlabelled

CLARE is a computational method designed to reveal sequence encryption of tissue-specific regulatory elements. Starting with a set of regulatory elements known to be active in a particular tissue/process, it learns the sequence code of the input set and builds a predictive model from features specific to those elements. The resulting model can then be applied to user-supplied genomic regions to identify novel candidate regulatory elements. CLARE's model also provides a detailed analysis of transcription factors that most likely bind to the elements, making it an invaluable tool for understanding mechanisms of tissue-specific gene regulation.

Availability

CLARE is freely accessible at http://clare.dcode.org/.

SUBMITTER: Taher L

PROVIDER: S-EPMC3278760 | biostudies-literature | 2012 Feb

REPOSITORIES: biostudies-literature

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CLARE: Cracking the LAnguage of Regulatory Elements.

Taher Leila L Narlikar Leelavati L Ovcharenko Ivan I

Bioinformatics (Oxford, England) 20111222 4

<h4>Unlabelled</h4>CLARE is a computational method designed to reveal sequence encryption of tissue-specific regulatory elements. Starting with a set of regulatory elements known to be active in a particular tissue/process, it learns the sequence code of the input set and builds a predictive model from features specific to those elements. The resulting model can then be applied to user-supplied genomic regions to identify novel candidate regulatory elements. CLARE's model also provides a detaile ...[more]

PMID: 22199387

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