TY - JOUR AU - Meckbach, Cornelia AU - Tacke, Rebecca AU - Hua, Xu AU - Waack, Stephan AU - Wingender, Edgar AU - Gültas, Mehmet PY - 2015 DA - 2015/12/01 TI - PC-TraFF: identification of potentially collaborating transcription factors using pointwise mutual information JO - BMC Bioinformatics SP - 400 VL - 16 IS - 1 AB - Transcription factors (TFs) are important regulatory proteins that govern transcriptional regulation. Today, it is known that in higher organisms different TFs have to cooperate rather than acting individually in order to control complex genetic programs. The identification of these interactions is an important challenge for understanding the molecular mechanisms of regulating biological processes. In this study, we present a new method based on pointwise mutual information, PC-TraFF, which considers the genome as a document, the sequences as sentences, and TF binding sites (TFBSs) as words to identify interacting TFs in a set of sequences. SN - 1471-2105 UR - https://doi.org/10.1186/s12859-015-0827-2 DO - 10.1186/s12859-015-0827-2 ID - Meckbach2015 ER -