{"status":"ok","message-type":"work","message-version":"1.0.0","message":{"indexed":{"date-parts":[[2026,9,30]],"date-time":"2026-09-30T10:06:47Z","timestamp":1790762807471,"version":"4.1.0"},"reference-count":37,"publisher":"Elsevier BV","license":[{"start":{"date-parts":[[2027,2,1]],"date-time":"2027-02-01T00:00:00Z","timestamp":1801440000000},"content-version":"tdm","delay-in-days":0,"URL":"https:\/\/www.elsevier.com\/tdm\/userlicense\/1.0\/"},{"start":{"date-parts":[[2027,2,1]],"date-time":"2027-02-01T00:00:00Z","timestamp":1801440000000},"content-version":"tdm","delay-in-days":0,"URL":"https:\/\/www.elsevier.com\/legal\/tdmrep-license"},{"start":{"date-parts":[[2027,2,1]],"date-time":"2027-02-01T00:00:00Z","timestamp":1801440000000},"content-version":"stm-asf","delay-in-days":0,"URL":"https:\/\/doi.org\/10.15223\/policy-017"},{"start":{"date-parts":[[2027,2,1]],"date-time":"2027-02-01T00:00:00Z","timestamp":1801440000000},"content-version":"stm-asf","delay-in-days":0,"URL":"https:\/\/doi.org\/10.15223\/policy-037"},{"start":{"date-parts":[[2027,2,1]],"date-time":"2027-02-01T00:00:00Z","timestamp":1801440000000},"content-version":"stm-asf","delay-in-days":0,"URL":"https:\/\/doi.org\/10.15223\/policy-012"},{"start":{"date-parts":[[2027,2,1]],"date-time":"2027-02-01T00:00:00Z","timestamp":1801440000000},"content-version":"stm-asf","delay-in-days":0,"URL":"https:\/\/doi.org\/10.15223\/policy-029"},{"start":{"date-parts":[[2027,2,1]],"date-time":"2027-02-01T00:00:00Z","timestamp":1801440000000},"content-version":"stm-asf","delay-in-days":0,"URL":"https:\/\/doi.org\/10.15223\/policy-004"}],"funder":[{"DOI":"10.13039\/501100017594","name":"Medical Science and Technology Project of Zhejiang Province","doi-asserted-by":"publisher","award":["2023KY1314"],"award-info":[{"award-number":["2023KY1314"]}],"id":[{"id":"10.13039\/501100017594","id-type":"DOI","asserted-by":"publisher"}]},{"DOI":"10.13039\/501100018552","name":"Science and Technology Plan Project of Taizhou","doi-asserted-by":"publisher","award":["23ywa10"],"award-info":[{"award-number":["23ywa10"]}],"id":[{"id":"10.13039\/501100018552","id-type":"DOI","asserted-by":"publisher"}]}],"content-domain":{"domain":["elsevier.com","sciencedirect.com"],"crossmark-restriction":true},"short-container-title":["Computational Biology and Chemistry"],"published-print":{"date-parts":[[2027,2]]},"DOI":"10.1016\/j.compbiolchem.2026.109349","type":"journal-article","created":{"date-parts":[[2026,8,26]],"date-time":"2026-08-26T07:04:06Z","timestamp":1787727846000},"page":"109349","update-policy":"https:\/\/doi.org\/10.1016\/elsevier_cm_policy","source":"Crossref","is-referenced-by-count":0,"special_numbering":"P1","title":["Machine learning-integrated molecular subtyping reveals two biologically distinct endometriosis subtypes in the EndometDB database"],"prefix":"10.1016","volume":"126","author":[{"given":"Yiqun","family":"Wang","sequence":"first","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Xiaozhen","family":"Cai","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Yi","family":"Xu","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Xia","family":"Ma","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]}],"member":"78","reference":[{"issue":"6","key":"10.1016\/j.compbiolchem.2026.109349_bib1","doi-asserted-by":"crossref","first-page":"1420","DOI":"10.1016\/j.fertnstert.2016.07.005","article-title":"Immune-inflammation gene signatures in endometriosis patients","volume":"106","author":"Ahn","year":"2016","journal-title":"Fertil. Steril."},{"key":"10.1016\/j.compbiolchem.2026.109349_bib2","series-title":"Optuna: A Next-generation Hyperparameter Optimization Framework","author":"Akiba","year":"2019"},{"issue":"4","key":"10.1016\/j.compbiolchem.2026.109349_bib3","doi-asserted-by":"crossref","first-page":"767","DOI":"10.1093\/humrep\/15.4.767","article-title":"Smooth muscles are frequent components of endometriotic lesions","volume":"15","author":"Anaf","year":"2000","journal-title":"Hum. Reprod."},{"key":"10.1016\/j.compbiolchem.2026.109349_bib4","doi-asserted-by":"crossref","first-page":"D991","DOI":"10.1093\/nar\/gks1193","article-title":"NCBI GEO: archive for functional genomics data sets--update","volume":"41","author":"Barrett","year":"2013","journal-title":"Nucleic Acids Res."},{"key":"10.1016\/j.compbiolchem.2026.109349_bib5","doi-asserted-by":"crossref","first-page":"1085","DOI":"10.1007\/s11548-024-03091-5","article-title":"EndoViT: pretraining vision transformers on a large collection of endoscopic images","volume":"19","author":"Bati\u0107","year":"2024","journal-title":"Int. J. Comput. Assist. Radiol. Surg."},{"issue":"2","key":"10.1016\/j.compbiolchem.2026.109349_bib6","doi-asserted-by":"crossref","DOI":"10.1093\/hropen\/hoac009","article-title":"ESHRE guideline: endometriosis","volume":"2022","author":"Becker","year":"2022","journal-title":"Hum. Reprod. Open."},{"issue":"1","key":"10.1016\/j.compbiolchem.2026.109349_bib7","doi-asserted-by":"crossref","first-page":"639","DOI":"10.1038\/s41598-021-04637-2","article-title":"Machine learning algorithms as new screening approach for patients with endometriosis","volume":"12","author":"Bendifallah","year":"2022","journal-title":"Sci. Rep."},{"issue":"3","key":"10.1016\/j.compbiolchem.2026.109349_bib8","doi-asserted-by":"crossref","first-page":"268","DOI":"10.1056\/NEJMra0804690","article-title":"Endometriosis","volume":"360","author":"Bulun","year":"2009","journal-title":"N. Engl. J. Med."},{"key":"10.1016\/j.compbiolchem.2026.109349_bib9","series-title":"XGBoost: A Scalable Tree Boosting System","author":"Chen","year":"2016"},{"issue":"9742","key":"10.1016\/j.compbiolchem.2026.109349_bib10","doi-asserted-by":"crossref","first-page":"730","DOI":"10.1016\/S0140-6736(10)60490-4","article-title":"Endometriosis and infertility: pathophysiology and management","volume":"376","author":"de Ziegler","year":"2010","journal-title":"Lancet"},{"issue":"9","key":"10.1016\/j.compbiolchem.2026.109349_bib11","doi-asserted-by":"crossref","first-page":"1234","DOI":"10.1177\/1933719116649711","article-title":"Endometrial BCL6 Overexpression in Eutopic Endometrium of Women With Endometriosis","volume":"23","author":"Evans-Hoeker","year":"2016","journal-title":"Reprod. Sci."},{"issue":"2","key":"10.1016\/j.compbiolchem.2026.109349_bib12","doi-asserted-by":"crossref","first-page":"255","DOI":"10.1038\/s41588-022-01254-1","article-title":"Single-cell transcriptomic analysis of endometriosis","volume":"55","author":"Fonseca","year":"2023","journal-title":"Nat. Genet."},{"issue":"1","key":"10.1016\/j.compbiolchem.2026.109349_bib13","doi-asserted-by":"crossref","first-page":"284","DOI":"10.1038\/s41597-020-00623-x","article-title":"A relational database to identify differentially expressed genes in the endometrium and endometriosis lesions","volume":"7","author":"Gabriel","year":"2020","journal-title":"Sci. Data"},{"issue":"4","key":"10.1016\/j.compbiolchem.2026.109349_bib14","doi-asserted-by":"crossref","first-page":"441","DOI":"10.1093\/humupd\/dmp007","article-title":"Recurrence of endometriosis and its control","volume":"15","author":"Guo","year":"2009","journal-title":"Hum. Reprod. Update"},{"key":"10.1016\/j.compbiolchem.2026.109349_bib15","doi-asserted-by":"crossref","first-page":"7","DOI":"10.1186\/1471-2105-14-7","article-title":"GSVA: gene set variation analysis for microarray and RNA-seq data","volume":"14","author":"H\u00e4nzelmann","year":"2013","journal-title":"BMC Bioinforma."},{"issue":"5","key":"10.1016\/j.compbiolchem.2026.109349_bib16","doi-asserted-by":"crossref","first-page":"817","DOI":"10.1093\/humrep\/dey026","article-title":"Secreted frizzled-related protein 2 (SFRP2) expression promotes lesion proliferation via canonical WNT signaling and indicates lesion borders in extraovarian endometriosis","volume":"33","author":"Heinosalo","year":"2018","journal-title":"Hum. Reprod."},{"issue":"12","key":"10.1016\/j.compbiolchem.2026.109349_bib17","first-page":"841","article-title":"Random survival forests","volume":"2","author":"Ishwaran","year":"2008","journal-title":"J. Thorac. Oncol. Off. Publ. Int. Assoc. Study Lung Cancer"},{"issue":"2","key":"10.1016\/j.compbiolchem.2026.109349_bib18","doi-asserted-by":"crossref","first-page":"315","DOI":"10.1093\/humrep\/dew293","article-title":"World Endometriosis Society consensus on the classification of endometriosis","volume":"32","author":"Johnson","year":"2017","journal-title":"Hum. Reprod."},{"issue":"7447","key":"10.1016\/j.compbiolchem.2026.109349_bib19","doi-asserted-by":"crossref","first-page":"67","DOI":"10.1038\/nature12113","article-title":"Integrated genomic characterization of endometrial carcinoma","volume":"497","author":"Kandoth","year":"2013","journal-title":"Nature"},{"key":"10.1016\/j.compbiolchem.2026.109349_bib20","doi-asserted-by":"crossref","first-page":"559","DOI":"10.1186\/1471-2105-9-559","article-title":"WGCNA: an R package for weighted correlation network analysis","volume":"9","author":"Langfelder","year":"2008","journal-title":"BMC Bioinforma."},{"issue":"6","key":"10.1016\/j.compbiolchem.2026.109349_bib21","doi-asserted-by":"crossref","first-page":"417","DOI":"10.1016\/j.cels.2015.12.004","article-title":"The Molecular Signatures Database (MSigDB) hallmark gene set collection","volume":"1","author":"Liberzon","year":"2015","journal-title":"Cell. Syst."},{"key":"10.1016\/j.compbiolchem.2026.109349_bib22","author":"Lundberg","year":"2017","journal-title":"A Unifi-.-. Approach Interpret. Model. Predict."},{"issue":"1","key":"10.1016\/j.compbiolchem.2026.109349_bib23","doi-asserted-by":"crossref","first-page":"460","DOI":"10.1186\/s12916-023-03166-1","article-title":"Gene expression profiles separate endometriosis lesion subtypes and indicate a sensitivity of endometrioma to estrogen suppressive treatments through elevated ESR2 expression","volume":"21","author":"Marla","year":"2023","journal-title":"BMC Med."},{"issue":"6","key":"10.1016\/j.compbiolchem.2026.109349_bib24","doi-asserted-by":"crossref","first-page":"651","DOI":"10.1093\/humupd\/dmq009","article-title":"Peripheral biomarkers of endometriosis: a systematic review","volume":"16","author":"May","year":"2010","journal-title":"Hum. Reprod. Update"},{"issue":"1","key":"10.1016\/j.compbiolchem.2026.109349_bib25","doi-asserted-by":"crossref","first-page":"45","DOI":"10.1093\/humupd\/6.1.45","article-title":"Vascular endothelial growth factor and endometriotic angiogenesis","volume":"6","author":"McLaren","year":"2000","journal-title":"Hum. Reprod. Update"},{"issue":"7","key":"10.1016\/j.compbiolchem.2026.109349_bib26","doi-asserted-by":"crossref","DOI":"10.1093\/nar\/gkv007","article-title":"limma powers differential expression analyses for RNA-sequencing and microarray studies","volume":"43","author":"Ritchie","year":"2015","journal-title":"Nucleic Acids Res."},{"issue":"1","key":"10.1016\/j.compbiolchem.2026.109349_bib27","doi-asserted-by":"crossref","first-page":"109","DOI":"10.1038\/s41746-022-00638-1","article-title":"Clinical use of artificial intelligence in endometriosis: a scoping review","volume":"5","author":"Sivajohan","year":"2022","journal-title":"NPJ Digit. Med."},{"issue":"D1","key":"10.1016\/j.compbiolchem.2026.109349_bib28","doi-asserted-by":"crossref","first-page":"D605","DOI":"10.1093\/nar\/gkaa1074","article-title":"The STRING database in 2021: customizable protein-protein networks, and functional characterization of user-uploaded gene\/measurement sets","volume":"49","author":"Szklarczyk","year":"2021","journal-title":"Nucleic Acids Res."},{"issue":"5","key":"10.1016\/j.compbiolchem.2026.109349_bib29","doi-asserted-by":"crossref","first-page":"1328","DOI":"10.1093\/humrep\/14.5.1328","article-title":"HOX gene expression is altered in the endometrium of women with endometriosis","volume":"14","author":"Taylor","year":"1999","journal-title":"Hum. Reprod."},{"issue":"10276","key":"10.1016\/j.compbiolchem.2026.109349_bib30","doi-asserted-by":"crossref","first-page":"839","DOI":"10.1016\/S0140-6736(21)00389-5","article-title":"Endometriosis is a chronic systemic disease: clinical challenges and novel innovations","volume":"397","author":"Taylor","year":"2021","journal-title":"Lancet"},{"key":"10.1016\/j.compbiolchem.2026.109349_bib31","doi-asserted-by":"crossref","unstructured":"The Gene Ontology resource: enriching a GOld mine (2021). Nucleic Acids Res, 49(D1), D325-d334, doi:10.1093\/nar\/gkaa1113.","DOI":"10.1093\/nar\/gkaa1113"},{"key":"10.1016\/j.compbiolchem.2026.109349_bib32","doi-asserted-by":"crossref","unstructured":"Tibshirani, R. (1997). The lasso method for variable selection in the Cox model. Stat Med, 16(4), 385-395, doi:10.1002\/(sici)1097-0258(19970228)16:4<385::aid-sim380>3.0.co;2-3.","DOI":"10.1002\/(SICI)1097-0258(19970228)16:4<385::AID-SIM380>3.0.CO;2-3"},{"issue":"5","key":"10.1016\/j.compbiolchem.2026.109349_bib33","doi-asserted-by":"crossref","first-page":"564","DOI":"10.1093\/humupd\/dmz018","article-title":"The endometrial immune environment of women with endometriosis","volume":"25","author":"Vallv\u00e9-Juanico","year":"2019","journal-title":"Hum. Reprod. Update"},{"issue":"1","key":"10.1016\/j.compbiolchem.2026.109349_bib34","doi-asserted-by":"crossref","first-page":"230","DOI":"10.1186\/s12916-019-1466-7","article-title":"Calibration: the Achilles heel of predictive analytics","volume":"17","author":"Van Calster","year":"2019","journal-title":"BMC Med."},{"key":"10.1016\/j.compbiolchem.2026.109349_bib35","doi-asserted-by":"crossref","first-page":"91","DOI":"10.1186\/1471-2105-7-91","article-title":"Bias in error estimation when using cross-validation for model selection","volume":"7","author":"Varma","year":"2006","journal-title":"BMC Bioinforma."},{"issue":"12","key":"10.1016\/j.compbiolchem.2026.109349_bib36","doi-asserted-by":"crossref","first-page":"1572","DOI":"10.1093\/bioinformatics\/btq170","article-title":"ConsensusClusterPlus: a class discovery tool with confidence assessments and item tracking","volume":"26","author":"Wilkerson","year":"2010","journal-title":"Bioinformatics"},{"issue":"13","key":"10.1016\/j.compbiolchem.2026.109349_bib37","doi-asserted-by":"crossref","first-page":"1244","DOI":"10.1056\/NEJMra1810764","article-title":"Endometriosis","volume":"382","author":"Zondervan","year":"2020","journal-title":"N. Engl. J. Med."}],"container-title":["Computational Biology and Chemistry"],"original-title":[],"language":"en","link":[{"URL":"https:\/\/api.elsevier.com\/content\/article\/PII:S1476927126004767?httpAccept=text\/xml","content-type":"text\/xml","content-version":"vor","intended-application":"text-mining"},{"URL":"https:\/\/api.elsevier.com\/content\/article\/PII:S1476927126004767?httpAccept=text\/plain","content-type":"text\/plain","content-version":"vor","intended-application":"text-mining"}],"deposited":{"date-parts":[[2026,9,30]],"date-time":"2026-09-30T09:51:52Z","timestamp":1790761912000},"score":1,"resource":{"primary":{"URL":"https:\/\/linkinghub.elsevier.com\/retrieve\/pii\/S1476927126004767"}},"subtitle":[],"short-title":[],"issued":{"date-parts":[[2027,2]]},"references-count":37,"alternative-id":["S1476927126004767"],"URL":"https:\/\/doi.org\/10.1016\/j.compbiolchem.2026.109349","relation":{},"ISSN":["1476-9271"],"issn-type":[{"value":"1476-9271","type":"print"}],"subject":[],"published":{"date-parts":[[2027,2]]},"assertion":[{"value":"Elsevier","name":"publisher","label":"This article is maintained by"},{"value":"Machine learning-integrated molecular subtyping reveals two biologically distinct endometriosis subtypes in the EndometDB database","name":"articletitle","label":"Article Title"},{"value":"Computational Biology and Chemistry","name":"journaltitle","label":"Journal Title"},{"value":"https:\/\/doi.org\/10.1016\/j.compbiolchem.2026.109349","name":"articlelink","label":"CrossRef DOI link to publisher maintained version"},{"value":"article","name":"content_type","label":"Content Type"},{"value":"\u00a9 2026 Published by Elsevier Ltd.","name":"copyright","label":"Copyright"}],"article-number":"109349"}}