Graph embedding and unsupervised learning predict genomic sub-compartments from HiC chromatin interaction data
Sign Up to like & getrecommendations! Published in 2020 at "Nature Communications"
DOI: 10.1038/s41467-020-14974-x
Abstract: Chromatin interaction studies can reveal how the genome is organized into spatially confined sub-compartments in the nucleus. However, accurately identifying sub-compartments from chromatin interaction data remains a challenge in computational biology. Here, we present Sub-Compartment… read more here.
Keywords: sub compartments; chromatin interaction; sub compartment; interaction data ... See more keywords
Systematic inference and comparison of multi-scale chromatin sub-compartments connects spatial organization to cell phenotypes
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DOI: 10.1038/s41467-021-22666-3
Abstract: Chromatin 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… read more here.
Keywords: sub compartments; chromatin sub; chromatin; multi scale ... See more keywords
CscoreTool-M infers 3D sub-compartment probabilities within cell population
Sign Up to like & getrecommendations! Published in 2023 at "Bioinformatics"
DOI: 10.1093/bioinformatics/btad314
Abstract: Abstract Motivation Computational inference of genome organization based on Hi-C sequencing has greatly aided the understanding of chromatin and nuclear organization in three dimensions (3D). However, existing computational methods fail to address the cell population… read more here.
Keywords: cell; sub compartments; sub compartment; cell population ... See more keywords