Knowledge Integration for Analyzing ChlP-seq

摘要：

　　To capture the genomic profiles for histone modification,chromatin immunoprecipitation (ChIP) is combined with next generation sequencing,which is called ChIP-seq.However,enriched regions generated from the ChIP-seq data are only evaluated on the limited knowledge acquired from manually examining the relevant biological literature.This paper proposes a novel framework,which integrates multiple knowledge sources such as biological literature,Gene Ontology,and microarray data.In order to precisely analyze ChIP-seq data for histone modification,knowledge integration is based on a unified probabilistic model.The model is employed to re-rank the enriched regions generated from peak finding algorithms.Through filtering the reranked enriched regions using some predefined threshold,more reliable and precise results could be generated.The combination of the multiple knowledge sources with the peaking finding algorithm produces a new paradigm for ChIP-seq data analysis.

关键词： histone modification ChlP-seq microarray Gene Ontology knowledge integration

作者: Deyu Zhou Yulan He

作者单位: School of Computer Science and Engineering, Southeast University, Nanjing, China Knowledge Media Institute,The Open University, Milton Keynes, UK

会议类型: 国际会议

会议名称: 2012 2nd international Conference on Materials Science and Information Technology(2012第二届材料科学与信息技术国际会议)(MSIT2012)

会议地点: 西安

会议语种:英文

页码: 1344-1348

在线出版日期: 2012-08-24（万方平台首次上网日期，不代表论文的发表时间）