{"status":"ok","message-type":"work","message-version":"1.0.0","message":{"indexed":{"date-parts":[[2026,2,25]],"date-time":"2026-02-25T04:53:51Z","timestamp":1771995231211,"version":"3.50.1"},"reference-count":57,"publisher":"Oxford University Press (OUP)","issue":"2","license":[{"start":{"date-parts":[[2024,2,8]],"date-time":"2024-02-08T00:00:00Z","timestamp":1707350400000},"content-version":"vor","delay-in-days":17,"URL":"https:\/\/creativecommons.org\/licenses\/by\/4.0\/"}],"funder":[{"DOI":"10.13039\/501100001809","name":"National Natural Science Foundation of China","doi-asserted-by":"publisher","award":["12205112"],"award-info":[{"award-number":["12205112"]}],"id":[{"id":"10.13039\/501100001809","id-type":"DOI","asserted-by":"publisher"}]},{"name":"Fundamental Research Funds for Central China Normal University"},{"DOI":"10.13039\/501100001809","name":"National Natural Science Foundation of China","doi-asserted-by":"publisher","award":["12175081"],"award-info":[{"award-number":["12175081"]}],"id":[{"id":"10.13039\/501100001809","id-type":"DOI","asserted-by":"publisher"}]},{"DOI":"10.13039\/501100012226","name":"Fundamental Research Funds for the Central Universities","doi-asserted-by":"publisher","award":["CCNU22QN004"],"award-info":[{"award-number":["CCNU22QN004"]}],"id":[{"id":"10.13039\/501100012226","id-type":"DOI","asserted-by":"publisher"}]},{"name":"Nature Science Foundation of Hubei Province","award":["2023AFB362"],"award-info":[{"award-number":["2023AFB362"]}]},{"name":"Hubei Key Laboratory of Genetic Regulation and Integrative Biology","award":["GRIB202219"],"award-info":[{"award-number":["GRIB202219"]}]}],"content-domain":{"domain":[],"crossmark-restriction":false},"short-container-title":[],"published-print":{"date-parts":[[2024,1,22]]},"abstract":"<jats:title>Abstract<\/jats:title>\n               <jats:p>Nucleosomes represent hubs in chromatin organization and gene regulation and interact with a plethora of chromatin factors through different modes. In addition, alterations in histone proteins such as cancer mutations and post-translational modifications have profound effects on histone\/nucleosome interactions. To elucidate the principles of histone interactions and the effects of those alterations, we developed histone interactomes for comprehensive mapping of histone\u2013histone interactions (HHIs), histone\u2013DNA interactions (HDIs), histone\u2013partner interactions (HPIs) and DNA\u2013partner interactions (DPIs) of 37 organisms, which contains a total of 3808 HPIs from 2544 binding proteins and 339 HHIs, 100 HDIs and 142 DPIs across 110 histone variants. With the developed networks, we explored histone interactions at different levels of granularities (protein-, domain- and residue-level) and performed systematic analysis on histone interactions at a large scale. Our analyses have characterized the preferred binding hotspots on both nucleosomal\/linker DNA and histone octamer and unraveled diverse binding modes between nucleosome and different classes of binding partners. Last, to understand the impact of histone cancer-associated mutations on histone\/nucleosome interactions, we complied one comprehensive cancer mutation dataset including 7940 cancer-associated histone mutations and further mapped those mutations onto 419,125 histone interactions at the residue level. Our quantitative analyses point to histone cancer-associated mutations' strongly disruptive effects on HHIs, HDIs and HPIs. We have further predicted 57 recurrent histone cancer mutations that have large effects on histone\/nucleosome interactions and may have driver status in oncogenesis.<\/jats:p>","DOI":"10.1093\/bib\/bbad532","type":"journal-article","created":{"date-parts":[[2024,2,8]],"date-time":"2024-02-08T09:32:06Z","timestamp":1707384726000},"source":"Crossref","is-referenced-by-count":13,"title":["Deciphering principles of nucleosome interactions and impact of cancer-associated mutations from comprehensive interaction network analysis"],"prefix":"10.1093","volume":"25","author":[{"given":"Wang","family":"Xu","sequence":"first","affiliation":[{"name":"Institute of Biophysics and Department of Physics, Central China Normal University , Wuhan 430079 , China"}],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Houfang","family":"Zhang","sequence":"additional","affiliation":[{"name":"Institute of Biophysics and Department of Physics, Central China Normal University , Wuhan 430079 , China"}],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Wenhan","family":"Guo","sequence":"additional","affiliation":[{"name":"Computational Science Program, University of Texas at El Paso , El Paso, TX 79902 , USA"}],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Lijun","family":"Jiang","sequence":"additional","affiliation":[{"name":"Hubei Key Laboratory of Genetic Regulation & Integrative Biology , School of Life Sciences, , Wuhan 430079 , China"},{"name":"Central China Normal University , School of Life Sciences, , Wuhan 430079 , China"}],"role":[{"role":"author","vocabulary":"crossref"}]},{"ORCID":"https:\/\/orcid.org\/0000-0002-5256-9456","authenticated-orcid":false,"given":"Yunjie","family":"Zhao","sequence":"additional","affiliation":[{"name":"Institute of Biophysics and Department of Physics, Central China Normal University , Wuhan 430079 , China"}],"role":[{"role":"author","vocabulary":"crossref"}]},{"ORCID":"https:\/\/orcid.org\/0000-0001-9768-4127","authenticated-orcid":false,"given":"Yunhui","family":"Peng","sequence":"additional","affiliation":[{"name":"Institute of Biophysics and Department of Physics, Central China Normal University , Wuhan 430079 , China"}],"role":[{"role":"author","vocabulary":"crossref"}]}],"member":"286","published-online":{"date-parts":[[2024,2,7]]},"reference":[{"key":"2024021710584263700_ref1","doi-asserted-by":"crossref","first-page":"2255","DOI":"10.1021\/cr500373h","article-title":"Nucleosome structure and function","volume":"115","author":"McGinty","year":"2015","journal-title":"Chem Rev"},{"key":"2024021710584263700_ref2","doi-asserted-by":"crossref","first-page":"251","DOI":"10.1038\/38444","article-title":"Crystal structure of the nucleosome core particle at 2.8 a 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