{"status":"ok","message-type":"work","message-version":"1.0.0","message":{"indexed":{"date-parts":[[2026,3,8]],"date-time":"2026-03-08T17:07:16Z","timestamp":1772989636392,"version":"3.50.1"},"reference-count":55,"publisher":"Oxford University Press (OUP)","issue":"2","license":[{"start":{"date-parts":[[2026,3,8]],"date-time":"2026-03-08T00:00:00Z","timestamp":1772928000000},"content-version":"vor","delay-in-days":7,"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":["2023YFF1204700"],"award-info":[{"award-number":["2023YFF1204700"]}],"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":["T2225001"],"award-info":[{"award-number":["T2225001"]}],"id":[{"id":"10.13039\/501100001809","id-type":"DOI","asserted-by":"publisher"}]},{"name":"Noncommunicable Chronic Diseases-National Science and Technology Major Project","award":["2023ZD0501200"],"award-info":[{"award-number":["2023ZD0501200"]}]}],"content-domain":{"domain":[],"crossmark-restriction":false},"short-container-title":[],"published-print":{"date-parts":[[2026,3,1]]},"abstract":"<jats:title>Abstract<\/jats:title>\n                  <jats:p>Single-cell Hi-C (scHi-C) provides unprecedented insight into 3D genome organization, but its sparse and noisy data pose challenges in accurately detecting A\/B compartments, which are crucial for understanding chromatin structure and gene regulation. We presented scDIAGRAM, a data-driven method for annotating A\/B compartments in single cells using direct statistical modeling and graph community detection. Unlike existing approaches, scDIAGRAM infers chromatin compartments directly from individual scHi-C matrix without imputation or external reference features, and subsequently assigns A\/B labels using conventional genomic annotations. Accuracy and robustness of scDIAGRAM were illustrated through simulated scHi-C datasets and a human cell line. We applied scDIAGRAM to real scHi-C datasets from the mouse brain cortex, mouse embryonic development, and human acute myeloid leukemia, demonstrating its ability to capture compartmental shifts associated with transcriptional variation. This robust framework offers new insights into the functional roles of chromatin compartments at single-cell resolution across various biological contexts.<\/jats:p>","DOI":"10.1093\/bib\/bbag096","type":"journal-article","created":{"date-parts":[[2026,2,11]],"date-time":"2026-02-11T12:43:34Z","timestamp":1770813814000},"source":"Crossref","is-referenced-by-count":0,"title":["scDIAGRAM: detecting chromatin compartments from individual single-cell Hi-C matrix without imputation or reference features"],"prefix":"10.1093","volume":"27","author":[{"given":"Yongli","family":"Peng","sequence":"first","affiliation":[{"name":"Beijing International Center for Mathematical Research (BICMR) , Peking University, No.5 Yiheyuan Road, Haidian District, Beijing 100871,","place":["China"]}]},{"given":"Yujing","family":"Deng","sequence":"additional","affiliation":[{"name":"Biomedical Pioneering Innovation Center (BIOPIC) , Peking University, No.5 Yiheyuan Road, Haidian District, Beijing 100871,","place":["China"]}]},{"given":"Menghan","family":"Liu","sequence":"additional","affiliation":[{"name":"Biomedical Pioneering Innovation Center (BIOPIC) , Peking University, No.5 Yiheyuan Road, Haidian District, Beijing 100871,","place":["China"]}]},{"given":"Zhiyuan","family":"Liu","sequence":"additional","affiliation":[{"name":"Biomedical Pioneering Innovation Center (BIOPIC) , Peking University, No.5 Yiheyuan Road, Haidian District, Beijing 100871,","place":["China"]}]},{"given":"Ya-Hui","family":"Li","sequence":"additional","affiliation":[{"name":"Peking University Institute of Hematology , National Clinical Research Center for Hematologic Disease, Peking University People's Hospital, No.11 Xizhimen South Street, Xicheng District, Beijing 100044,","place":["China"]}]},{"given":"Xiang-Yu","family":"Zhao","sequence":"additional","affiliation":[{"name":"Peking University Institute of Hematology , National Clinical Research Center for Hematologic Disease, Peking University 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