@article { ISI:000300490500018, title = {Clare: cracking the language of regulatory elements}, journal = {Bioinformatics}, volume = {28}, number = {4}, year = {2012}, month = {FEB}, pages = {581-583}, publisher = {OXFORD UNIV PRESS}, address = {GREAT CLARENDON ST, OXFORD OX2 6DP, ENGLAND}, abstract = {

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{\textquoteright}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.

}, issn = {1367-4803}, doi = {10.1093/bioinformatics/btr704}, author = {Taher, Leila and Narlikar, Leelavati and Ovcharenko, Ivan} }