title: MICC: an R package for identifying chromatin interactions from ChIA-PET data.
abstract: ChIA-PET is rapidly emerging as an important experimental approach to detect chromatin long-range interactions at high resolution. Here, we present Model based Interaction Calling from ChIA-PET data (MICC), an easy-to-use R package to detect chromatin interactions from ChIA-PET sequencing data. By applying a Bayesian mixture model to systematically remove random ligation and random collision noise, MICC could identify chromatin interactions with a significantly higher sensitivity than existing methods at the same false discovery rate.
  
  
  METHODS
  http://bioinfo.au.tsinghua.edu.cn/member/xwwang/MICCusage
  
  
  BACKGROUND
  michael.zhang@utdallas.edu or xwwang@tsinghua.edu.cn.
  
  
  BACKGROUND
  Supplementary data are available at Bioinformatics online.
authors.affiliation: MOE Key Laboratory of Bioinformatics and Bioinformatics Division, Center for Synthetic and System Biology, TNLIST/Department of Automation, Tsinghua University, Beijing 100084, China and.
authors.forename: Chao
authors.initials: C
authors.lastname: He
authors.affiliation: Department of Molecular and Cell Biology, Center for Systems Biology, The University of Texas, Richardson, TX 75080-3021, USA MOE Key Laboratory of Bioinformatics and Bioinformatics Division, Center for Synthetic and System Biology, TNLIST/Department of Automation, Tsinghua University, Beijing 100084, China and.
authors.forename: Michael Q
authors.initials: MQ
authors.lastname: Zhang
authors.affiliation: MOE Key Laboratory of Bioinformatics and Bioinformatics Division, Center for Synthetic and System Biology, TNLIST/Department of Automation, Tsinghua University, Beijing 100084, China and.
authors.forename: Xiaowo
authors.initials: X
authors.lastname: Wang
mesh_terms: D000465:Algorithms; D001499:Bayes Theorem; D002843:Chromatin / Q000235:genetics* / Q000378:metabolism*; D047369:Chromatin Immunoprecipitation; D003198:Computer Simulation; D006801:Humans; D015233:Models, Statistical; D011381:Programming Languages; D017422:Sequence Analysis, DNA / Q000379:methods*
chemical_list: D002843:Chromatin