Iterative correction of Hi-C data reveals hallmarks of chromosome organization

作者：Imakaev, Maxim; Fudenberg, Geoffrey; McCord, Rachel Patton; Naumova, Natalia; Goloborodko, Anton; Lajoie, Bryan R.; Dekker, Job^*; Mirny, Leonid A.

来源：Nature Methods, 2012, 9(10): 999-+.

DOI：10.1038/NMETH.2148

• SPATIAL-ORGANIZATION
• PRINCIPLES
• DOMAINS
• GENOME
• MOUSE

Extracting biologically meaningful information from chromosomal interactions obtained with genome-wide chromosome conformation capture (3C) analyses requires the elimination of systematic biases. We present a computational pipeline that integrates a strategy to map sequencing reads with a data-driven method for iterative correction of biases, yielding genome-wide maps of relative contact probabilities. We validate this ICE (iterative correction and eigenvector decomposition) technique on published data obtained by the high-throughput 3C method Hi-C, and we demonstrate that eigenvector decomposition of the obtained maps provides insights into local chromatin states, global patterns of chromosomal interactions, and the conserved organization of human and mouse chromosomes.

• 出版日期2012-10
• 单位河北医科大学