Liu, YuanlongNanni, LucaSungalee, StephanieZufferey, MarieTavernari, DanieleMina, MarcoCeri, StefanoOricchio, ElisaCiriello, Giovanni2021-08-142021-08-142021-08-142021-05-1010.1038/s41467-021-22666-3https://infoscience.epfl.ch/handle/20.500.14299/180665WOS:000678720100001Chromatin compartmentalization reflects biological activity. However, inference of chromatin sub-compartments and compartment domains from chromosome conformation capture (Hi-C) experiments is limited by data resolution. As a result, these have been characterized only in a few cell types and systematic comparisons across multiple tissues and conditions are missing. Here, we present Calder, an algorithmic approach that enables the identification of multi-scale sub-compartments at variable data resolution. Calder allows to infer and compare chromatin sub-compartments and compartment domains in >100 cell lines. Our results reveal sub-compartments enriched for poised chromatin states and undergoing spatial repositioning during lineage differentiation and oncogenic transformation. Computational algorithms to infer chromatin sub-compartments and compartment domains require high-resolution Hi-C maps. Here the authors present Calder, an algorithm that can infer sub-compartments and compartment domains with variable resolution Hi-C data, and they apply it to more than a hundred Hi-C experiments to study sub-compartment repositioning.Multidisciplinary SciencesScience & Technology - Other Topicsprinciplescancergenomedomainsfoxostext::journal::journal article::research article