{"status":"ok","message-type":"work","message-version":"1.0.0","message":{"indexed":{"date-parts":[[2026,1,19]],"date-time":"2026-01-19T00:10:45Z","timestamp":1768781445601,"version":"3.49.0"},"reference-count":48,"publisher":"Oxford University Press (OUP)","issue":"4","license":[{"start":{"date-parts":[[2024,6,4]],"date-time":"2024-06-04T00:00:00Z","timestamp":1717459200000},"content-version":"vor","delay-in-days":12,"URL":"https:\/\/creativecommons.org\/licenses\/by-nc\/4.0\/"}],"funder":[{"DOI":"10.13039\/501100001809","name":"National Natural Science Foundation of China","doi-asserted-by":"publisher","award":["82170045"],"award-info":[{"award-number":["82170045"]}],"id":[{"id":"10.13039\/501100001809","id-type":"DOI","asserted-by":"publisher"}]},{"DOI":"10.13039\/100020732","name":"Innovative Research Team of High-level Local Universities in Shanghai","doi-asserted-by":"publisher","award":["SHSMU-ZLCX20212301"],"award-info":[{"award-number":["SHSMU-ZLCX20212301"]}],"id":[{"id":"10.13039\/100020732","id-type":"DOI","asserted-by":"publisher"}]}],"content-domain":{"domain":[],"crossmark-restriction":false},"short-container-title":[],"published-print":{"date-parts":[[2024,5,23]]},"abstract":"<jats:title>Abstract<\/jats:title>\n               <jats:p>Recent advances in tumor molecular subtyping have revolutionized precision oncology, offering novel avenues for patient-specific treatment strategies. However, a comprehensive and independent comparison of these subtyping methodologies remains unexplored. This study introduces \u2018Themis\u2019 (Tumor HEterogeneity analysis on Molecular subtypIng System), an evaluation platform that encapsulates a few representative tumor molecular subtyping methods, including Stemness, Anoikis, Metabolism, and pathway-based classifications, utilizing 38 test datasets curated from The Cancer Genome Atlas (TCGA) and significant studies. Our self-designed quantitative analysis uncovers the relative strengths, limitations, and applicability of each method in different clinical contexts. Crucially, Themis serves as a vital tool in identifying the most appropriate subtyping methods for specific clinical scenarios. It also guides fine-tuning existing subtyping methods to achieve more accurate phenotype-associated results. To demonstrate the practical utility, we apply Themis to a breast cancer dataset, showcasing its efficacy in selecting the most suitable subtyping methods for personalized medicine in various clinical scenarios. This study bridges a crucial gap in cancer research and lays a foundation for future advancements in individualized cancer therapy and patient management.<\/jats:p>","DOI":"10.1093\/bib\/bbae261","type":"journal-article","created":{"date-parts":[[2024,6,5]],"date-time":"2024-06-05T01:25:02Z","timestamp":1717550702000},"source":"Crossref","is-referenced-by-count":4,"title":["Themis: advancing precision oncology through comprehensive molecular subtyping and optimization"],"prefix":"10.1093","volume":"25","author":[{"given":"Yue","family":"Xi","sequence":"first","affiliation":[{"name":"Department of Reproductive Medicine , Central Hospital Affiliated to Shandong First Medical University, Jinan, Shandong Province, 250013, China"},{"name":"Institute of Clinical Science , Zhongshan Hospital, , Shanghai, China"},{"name":"Fudan University , Zhongshan Hospital, , Shanghai, China"}],"role":[{"role":"author","vocabulary":"crossref"}]},{"ORCID":"https:\/\/orcid.org\/0000-0002-5779-6682","authenticated-orcid":false,"given":"Kun","family":"Zheng","sequence":"additional","affiliation":[{"name":"Department of Urology, Shanghai Sixth People's Hospital Affiliated to Shanghai Jiao Tong University School of Medicine , Shanghai 200233, China"}],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Fulan","family":"Deng","sequence":"additional","affiliation":[{"name":"School of Materials Science and Engineering, Shanghai Institute of Technology , Shanghai 201418, China"}],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Yujun","family":"Liu","sequence":"additional","affiliation":[{"name":"Department of Radiation Oncology , Fudan University Shanghai Cancer Center, , Shanghai, China"},{"name":"Fudan University , Fudan University Shanghai Cancer Center, , Shanghai, China"}],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Hourong","family":"Sun","sequence":"additional","affiliation":[{"name":"Qilu Hospital , Cheeloo College of Medicine, , Jinan, Shandong, China"},{"name":"Shandong University , Cheeloo College of Medicine, , Jinan, Shandong, China"},{"name":"Department of Cardiovascular Surgery, Qilu Hospital of Shandong University , Jinan, Shandong, China"}],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Yingxia","family":"Zheng","sequence":"additional","affiliation":[{"name":"Department of Laboratory Medicine , Xin Hua Hospital, , Shanghai, China"},{"name":"Shanghai Jiao Tong University School of Medicine , Xin Hua Hospital, , Shanghai, China"}],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Henry H Y","family":"Tong","sequence":"additional","affiliation":[{"name":"Centre for Artificial Intelligence Driven Drug Discovery , Faculty of Applied Sciences, , Macao SAR, China"},{"name":"Macao Polytechnic University , Faculty of Applied Sciences, , Macao SAR, China"}],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Yuan","family":"Ji","sequence":"additional","affiliation":[{"name":"Molecular Pathology center , Dept. Pathology, Zhongshan Hospital,"},{"name":"Fudan University , Dept. 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