{"status":"ok","message-type":"work","message-version":"1.0.0","message":{"indexed":{"date-parts":[[2026,4,7]],"date-time":"2026-04-07T09:35:51Z","timestamp":1775554551252,"version":"3.50.1"},"reference-count":11,"publisher":"Oxford University Press (OUP)","issue":"9","license":[{"start":{"date-parts":[[2017,12,13]],"date-time":"2017-12-13T00:00:00Z","timestamp":1513123200000},"content-version":"vor","delay-in-days":0,"URL":"https:\/\/academic.oup.com\/journals\/pages\/about_us\/legal\/notices"}],"funder":[{"DOI":"10.13039\/100000002","name":"National Institutes of Health","doi-asserted-by":"publisher","award":["R01GM106023"],"award-info":[{"award-number":["R01GM106023"]}],"id":[{"id":"10.13039\/100000002","id-type":"DOI","asserted-by":"publisher"}]}],"content-domain":{"domain":[],"crossmark-restriction":false},"short-container-title":[],"published-print":{"date-parts":[[2018,5,1]]},"abstract":"<jats:title>Abstract<\/jats:title>\n                  <jats:sec>\n                    <jats:title>Summary<\/jats:title>\n                    <jats:p>The genome-wide chromosome conformation capture (Hi-C) has revealed that the eukaryotic genome can be partitioned into A and B compartments that have distinctive chromatin and transcription features. Current Principle Component Analyses (PCA)-based method for the A\/B compartment prediction based on Hi-C data requires substantial CPU time and memory. We report the development of a method, CscoreTool, which enables fast and memory-efficient determination of A\/B compartments at high resolution even in datasets with low sequencing depth.<\/jats:p>\n                  <\/jats:sec>\n                  <jats:sec>\n                    <jats:title>Availability and implementation<\/jats:title>\n                    <jats:p>https:\/\/github.com\/scoutzxb\/CscoreTool<\/jats:p>\n                  <\/jats:sec>\n                  <jats:sec>\n                    <jats:title>Supplementary information<\/jats:title>\n                    <jats:p>Supplementary data are available at Bioinformatics online.<\/jats:p>\n                  <\/jats:sec>","DOI":"10.1093\/bioinformatics\/btx802","type":"journal-article","created":{"date-parts":[[2017,12,12]],"date-time":"2017-12-12T23:11:05Z","timestamp":1513120265000},"page":"1568-1570","source":"Crossref","is-referenced-by-count":90,"title":["CscoreTool: fast Hi-C compartment analysis at high resolution"],"prefix":"10.1093","volume":"34","author":[{"given":"Xiaobin","family":"Zheng","sequence":"first","affiliation":[{"name":"Department of Embryology, Carnegie Institution for Science, Baltimore, MD, USA"}]},{"given":"Yixian","family":"Zheng","sequence":"additional","affiliation":[{"name":"Department of Embryology, Carnegie Institution for Science, Baltimore, MD, USA"}]}],"member":"286","published-online":{"date-parts":[[2017,12,13]]},"reference":[{"key":"2023012713021176600_btx802-B1","doi-asserted-by":"crossref","first-page":"57","DOI":"10.1038\/nature11247","article-title":"An integrated encyclopedia of DNA elements in the human genome","volume":"489","author":"Consortium","year":"2012","journal-title":"Nature"},{"key":"2023012713021176600_btx802-B2","doi-asserted-by":"crossref","first-page":"376","DOI":"10.1038\/nature11082","article-title":"Topological domains in mammalian genomes identified by analysis of chromatin interactions","volume":"485","author":"Dixon","year":"2012","journal-title":"Nature"},{"key":"2023012713021176600_btx802-B3","doi-asserted-by":"crossref","first-page":"232","DOI":"10.1038\/nature23263","article-title":"Allelic reprogramming of 3D chromatin architecture during early mammalian development","volume":"547","author":"Du","year":"2017","journal-title":"Nature"},{"key":"2023012713021176600_btx802-B4","doi-asserted-by":"crossref","first-page":"773","DOI":"10.1016\/j.molcel.2013.02.011","article-title":"The hierarchy of the 3D genome","volume":"49","author":"Gibcus","year":"2013","journal-title":"Mol. 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