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bioRxiv · 10.1101/044214

iFORM: incorporating Find Occurrence of Regulatory Motifs

Chao Ren·Hebing Chen·Feng Liu·Hao Li·Xiaochen Bo·Wenjie Shu
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Abstract

MotivationAccurately identifying binding sites of transcription factors (TFs) is crucial to understand the mechanisms of transcriptional regulation and human disease.\n\nResultsWe present incorporating Find Occurrence of Regulatory Motifs (iFORM), an easy-to-use tool for scanning DNA sequence with TF motifs described as position weight matrices (PWMs). iFORM achieves higher accuracy and sensitivity by integrating the results from five classical motif discovery programs based on Fishers combined probability test. We have used iFORM to provide accurate results on a variety of data in the ENCODE Project and the NIH Roadmap Epigenomics Project, and has demonstrated its utility to further understand individual roles of functional elements.\n\nAvailabilityiFORM can be freely accessed athttps://github.com/wenjiegroup/iFORM.\n\nContactshuwj@bmi.ac.cn and boxc@bmi.ac.cn

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Chao Ren, Hebing Chen, Feng Liu, Hao Li, Xiaochen Bo, Wenjie Shu. 2016-03-16. iFORM: incorporating Find Occurrence of Regulatory Motifs. https://doi.org/10.1101/044214

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