CLARE: Cracking the LAnguage of Regulatory Elements

Leila Taher, Leelavati Narlikar, Ivan Ovcharenko

Research output: Contribution to journalArticlepeer-review


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

Original languageEnglish
Pages (from-to)581-3
Number of pages3
Issue number4
Publication statusPublished - 15 Feb 2012


  • Animals
  • Enhancer Elements, Genetic
  • Gene Expression Regulation
  • Genomics
  • Humans
  • Mice
  • Organ Specificity
  • Prosencephalon/metabolism
  • Regulatory Sequences, Nucleic Acid
  • Software
  • Transcription Factors/metabolism


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