CLARE: Cracking the LAnguage of Regulatory Elements
0301 basic medicine
0206 medical engineering
Genomics
02 engineering and technology
Regulatory Sequences, Nucleic Acid
Mice
03 medical and health sciences
Enhancer Elements, Genetic
Prosencephalon
Gene Expression Regulation
Organ Specificity
Animals
Humans
Software
Transcription Factors
DOI:
10.1093/bioinformatics/btr704
Publication Date:
2011-12-24T02:37:52Z
AUTHORS (3)
ABSTRACT
AbstractSummary: 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/.Contact: taherl@ncbi.nlm.nih.gov; ovcharen@nih.govSupplementary information: Supplementary data are available at Bioinformatics online.
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