Predicting chromatin organization using histone marks

Jialiang Huang, Eugenio Marco, Luca Pinello, Guo Cheng Yuan

Research output: Contribution to journalArticlepeer-review

73 Scopus citations


Genome-wide mapping of three dimensional chromatin organization is an important yet technically challenging task. To aid experimental effort and to understand the determinants of long-range chromatin interactions, we have developed a computational model integrating Hi-C and histone mark ChIP-seq data to predict two important features of chromatin organization: chromatin interaction hubs and topologically associated domain (TAD) boundaries. Our model accurately and robustly predicts these features across datasets and cell types. Cell-type specific histone mark information is required for prediction of chromatin interaction hubs but not for TAD boundaries. Our predictions provide a useful guide for the exploration of chromatin organization.

Original languageEnglish
Article number162
JournalGenome Biology
Issue number1
StatePublished - 14 Aug 2015
Externally publishedYes


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