{"status":"ok","message-type":"work","message-version":"1.0.0","message":{"indexed":{"date-parts":[[2026,10,17]],"date-time":"2026-10-17T19:44:04Z","timestamp":1792266244389,"version":"4.4.0"},"reference-count":17,"publisher":"Oxford University Press (OUP)","issue":"10","license":[{"start":{"date-parts":[[2026,9,17]],"date-time":"2026-09-17T00:00:00Z","timestamp":1789603200000},"content-version":"vor","delay-in-days":0,"URL":"https:\/\/creativecommons.org\/licenses\/by\/4.0\/"}],"funder":[{"DOI":"10.13039\/501100012166","name":"National Key Research and Development Program of China","doi-asserted-by":"publisher","award":["2021YFD2200505"],"award-info":[{"award-number":["2021YFD2200505"]}],"id":[{"id":"10.13039\/501100012166","id-type":"DOI","asserted-by":"publisher"}]},{"DOI":"10.13039\/501100001809","name":"National Natural Science Foundation of China","doi-asserted-by":"publisher","award":["32071849"],"award-info":[{"award-number":["32071849"]}],"id":[{"id":"10.13039\/501100001809","id-type":"DOI","asserted-by":"publisher"}]}],"content-domain":{"domain":[],"crossmark-restriction":false},"short-container-title":[],"published-print":{"date-parts":[[2026,10,2]]},"abstract":"<jats:title>Abstract<\/jats:title>\n                  <jats:sec>\n                    <jats:title>Summary<\/jats:title>\n                    <jats:p>Cross-species Hi-C comparison remains challenging because existing workflows often rely on multiple scripts, heterogeneous I\/O formats, and limited diagnostic support. We present coolsecture, a Python 3 command-line toolkit that integrates multiple contact-matrix and synteny formats with bidirectional lift-over and reciprocal consistency assessment, multi-resolution percentile-based comparison, diagnostic visualization, and cross-sample similarity analysis, providing a streamlined and reproducible framework for comparative Hi-C analysis.<\/jats:p>\n                  <\/jats:sec>\n                  <jats:sec>\n                    <jats:title>Availability and implementation<\/jats:title>\n                    <jats:p>coolsecture is distributed under the GPL-3 license. Source code, Snakemake workflows, and documentation are freely available at https:\/\/github.com\/pk-zhu\/Coolsecture and are archived on Figshare at https:\/\/doi.org\/10.6084\/m9.figshare.30158440<\/jats:p>\n                  <\/jats:sec>","DOI":"10.1093\/bioinformatics\/btag683","type":"journal-article","created":{"date-parts":[[2026,9,17]],"date-time":"2026-09-17T13:22:05Z","timestamp":1789651325000},"source":"Crossref","is-referenced-by-count":0,"title":["Coolsecture: an easy-to-use and improved framework for cross-species Hi-C contact map comparison"],"prefix":"10.1093","volume":"42","author":[{"ORCID":"https:\/\/orcid.org\/0009-0007-5598-1300","authenticated-orcid":false,"given":"Peng-Kai","family":"Zhu","sequence":"first","affiliation":[{"name":"Key Laboratory of National Forestry and Grassland Administration on Bamboo & Rattan, International Center for Bamboo and Rattan , Beijing 100102,","place":["China"]}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Jiang-Qi","family":"Pan","sequence":"additional","affiliation":[{"name":"Center for Agricultural Resources Research, Institute of Genetic and Developmental Biology, Chinese Academy of Sciences , Shijiazhuang 050022,","place":["China"]}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Zhan-Chao","family":"Cheng","sequence":"additional","affiliation":[{"name":"Key Laboratory of National Forestry and Grassland Administration on Bamboo & Rattan, International Center for Bamboo and Rattan , Beijing 100102,","place":["China"]}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Jian","family":"Gao","sequence":"additional","affiliation":[{"name":"Key Laboratory of National Forestry and Grassland Administration on Bamboo & Rattan, International Center for Bamboo and Rattan , Beijing 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