[{"data":1,"prerenderedAt":-1},["ShallowReactive",2],{"doc-detail-128322-en":3,"doc-seo-128322-105":31,"detail-sidebar-cat-0-en-105":92},{"code":4,"msg":5,"data":6},0,"success",{"doc_id":7,"user_id":8,"nickname":9,"user_avatar":10,"doc_module":4,"category_id":11,"category_name":12,"doc_title":13,"doc_description":14,"doc_content":15,"file_id":16,"file_url":17,"file_type":18,"file_size":19,"view_count":20,"is_deleted":4,"is_public":21,"is_downloadable":21,"audit_status":21,"page_count":22,"language":23,"language_code":24,"site_id":25,"html_lang":24,"table_of_contents":26,"faqs":27,"seo_title":28,"seo_description":14,"update_tm":29,"read_time":30},128322,962085564381,"Clementine","https://ap-avatar.wpscdn.com/davatar_6f874abed73319feea01a86fa6f0fab8",8,"Research & Report","Identification of shared diagnostic genes between osteoporosis and Crohn’s disease through integrated transcriptomic analysis and machine learning","Crohn’s disease (CD) is a chronic inflammatory bowel disease linked to enhanced bone resorption, elevating the risk of osteoporosis (OP). This study integrates transcriptomic evidence to screen shared hub co-diagnostic genes between CD and OP using weighted gene co-expression network analysis and two machine-learning algorithms. Nomograms, ROC curves, calibration, and decision curve analyses assess diagnostic value. Gene set enrichment, immune infiltration, and in vitro validation converge on ABO as a key shared gene supporting co-management.","TYPE Original Research PUBLISHED 07 October 2025  \nDOI 10.3389/fgene.2025.1609915  \nOPEN ACCESS  \nEDITED BY  \nElisa Frullanti,  \nUniversity of Siena, Italy  \nREVIEWED BY  \nZi-An Chen,  \nSecond Hospital of Hebei Medical University, China  \nKhaled H. Mousa,  \nInternational Center for Agriculture Research in the Dry Areas (ICARDA) Egypt, Egypt  \n*CORRESPONDENCE  \nChenpo Dang,  \n [Doctor940S@163.com](Doctor940S@163.com)[ ](Doctor940S@163.com)Shensong Li,  \n [lishensong1207@sina.com.cn](lishensong1207@sina.com.cn)  \n†These authors have contributed equally to this work  \nRECEIVED 24 April 2025  \nACCEPTED 22 September 2025  \nPUBLISHED 07 October 2025  \nCORRECTED 07 November 2025  \nCITATION  \nYi G, Zhou P, Yang Q, Zhao M, Yang Q, Li S and Dang C (2025) Identification of shared diagnostic genes between osteoporosis and Crohn ’s disease through integrated transcriptomic analysis and machine learning. Front. Genet. 16:1609915 .  \ndoi: 10.3389/fgene.2025.1609915  \nCOPYRIGHT  \n© 2025 Yi, Zhou, Yang, Zhao, Yang, Li and Dang. This is an open-access article distributed under the terms of the Creative Commons Attribution License (CC BY) . The use, distribution or reproduction in other forums is permitted, provided the original author(s) and the copyright owner(s) are credited and that the original publication in this journal is cited, in accordance with accepted academic practice. No use, distribution or reproduction is permitted which does not comply with these terms.  \nIdentification of shared diagnostic genes between osteoporosis and Crohn’s disease through integrated transcriptomic analysis and machine learning  \nGuirong Yi 1†, Peng Zhou 2,3†, Qinxu Yang 2, Maosheng Zhao 2, Qiaoqiao Yang 2, Shensong Li 2* and Chenpo Dang 2*  \n1Department of Gastroenterology, The Second Hospital & Clinical Medical School, Lanzhou University, Lanzhou, Gansu, China, 2Department of sports medicine, The 940th Hospital of Joint Logistic Support Force of Chinese People ’s Liberation Army, Lanzhou, Gansu, China, 3Department of orthopedics, The 941th Hospital of Joint Logistic Support Force of Chinese People’s Liberation Army, Xining, Qinghai, China  \nIntroduction: Crohn’s disease (CD) is a chronic inflammatory bowel disease. CDrelated inflammation can lead to enhanced bone resorption and destruction, thereby increasing the risk of osteoporosis (OP) . This study aimed to screen the hub co-diagnostic gene of CD and OP.  \nMethods: The gene expression profiles of CD and OP were obtained from the GEO database to select differentially expressed genes (DEGs) . Module genes were identified by weighted gene co-expression network analysis. Two machine learning algorithms were employed to screen potential shared genes, and nomograms were constructed to assess their clinical predictive value. Receiver operating characteristic curves, calibration curves, and decision curve analysis were used to evaluate the diagnostic performance of the hub genes. Gene set enrichment analysis (GSEA) and immune infiltration analysis were performed to explore the underlying mechanisms of the hub genes in CD and OP. In vitro experiments were conducted to validate the bioinformatics results. Results: The result showed that a total of 8 DEGs and 15 key module genes were found to be related to both CD and OP, from which machine learning screened out 5 potential shared genes. Subsequently, ABO was identified as the hub codiagnostic gene with good diagnostic value. GSEA results showed that ABO was involved in the mitochondrial matrix, chromosomal region, and ribosome in both CD and OP. Immune infiltration analysis found that activated CD8 T cell, effector memory CD4 T cell, and immature B cell were all significantly negatively correlated with ABO in both diseases. In vitro experiments confirmed the downregulation of ABO in CD and OP cell models.  \nDiscussion: Overall, ABO was identified as a hub co-diagnostic gene for CD and OP, providing new insights into their co-management.  \nKEYWORDS  \nOsteoporosis, Crohn’s d","cbCaiqDfG8yRz2vh","https://ap.wps.com/l/cbCaiqDfG8yRz2vh","pdf",5970233,4,1,17,"English","en",105,"# Introduction\n# Methods\n## Data processing and gene screening\n## Machine learning and diagnostic assessment\n## Mechanistic analyses and validation\n# Results\n# Discussion","[{\"question\":\"What was the main goal of this study?\",\"answer\":\"To identify hub co-diagnostic genes shared between osteoporosis and Crohn’s disease using integrated transcriptomic analysis and machine learning.\"},{\"question\":\"How were potential shared genes selected?\",\"answer\":\"Differentially expressed genes were obtained from GEO, module genes were identified via weighted gene co-expression network analysis, and two machine-learning algorithms screened candidate shared genes.\"},{\"question\":\"Which gene was identified as the hub co-diagnostic gene and how was it validated?\",\"answer\":\"ABO was identified as the hub co-diagnostic gene. Enrichment and immune infiltration analyses supported its involvement, and in vitro experiments confirmed downregulation of ABO in CD and OP cell models.\"}]","Identification of shared diagnostic genes between osteoporosis and Crohn’s disease through integrated transcriptomic analysis and machine learning | PDF",1785946825,43,{"code":4,"msg":32,"data":33},"ok",{"site_id":25,"language":24,"slug":34,"title":13,"keywords":35,"description":14,"schema_data":36,"social_meta":87,"head_meta":89,"extra_data":91,"updated_unix":29},"identification-of-shared-diagnostic-genes-between-osteoporosis-and-crohns-disease-through-integrated-transcriptomic-analysis-and-machine-learning","",{"@graph":37,"@context":86},[38,54,69],{"@type":39,"itemListElement":40},"BreadcrumbList",[41,45,49,52],{"item":42,"name":43,"@type":44,"position":21},"https://docshare.wps.com","Home","ListItem",{"item":46,"name":47,"@type":44,"position":48},"https://docshare.wps.com/document/","Document",2,{"item":50,"name":12,"@type":44,"position":51},"https://docshare.wps.com/document/research-report/",3,{"item":53,"name":13,"@type":44,"position":20},"https://docshare.wps.com/document/identification-of-shared-diagnostic-genes-between-osteoporosis-and-crohns-disease-through-integrated-transcriptomic-analysis-and-machine-learning/128322/",{"url":53,"name":13,"@type":55,"author":56,"headline":13,"publisher":58,"fileFormat":61,"inLanguage":24,"description":14,"dateModified":62,"datePublished":63,"encodingFormat":61,"isAccessibleForFree":64,"interactionStatistic":65},"DigitalDocument",{"name":9,"@type":57},"Person",{"url":42,"name":59,"@type":60},"DocShare","Organization","application/pdf","2026-08-28","2026-08-05",true,{"@type":66,"interactionType":67,"userInteractionCount":20},"InteractionCounter",{"@type":68},"ViewAction",{"@type":70,"mainEntity":71},"FAQPage",[72,78,82],{"name":73,"@type":74,"acceptedAnswer":75},"What was the main goal of this study?","Question",{"text":76,"@type":77},"To identify hub co-diagnostic genes shared between osteoporosis and Crohn’s disease using integrated transcriptomic analysis and machine learning.","Answer",{"name":79,"@type":74,"acceptedAnswer":80},"How were potential shared genes selected?",{"text":81,"@type":77},"Differentially expressed genes were obtained from GEO, module genes were identified via weighted gene co-expression network analysis, and two machine-learning algorithms screened candidate shared genes.",{"name":83,"@type":74,"acceptedAnswer":84},"Which gene was identified as the hub co-diagnostic gene and how was it validated?",{"text":85,"@type":77},"ABO was identified as the hub co-diagnostic gene. Enrichment and immune infiltration analyses supported its involvement, and in vitro experiments confirmed downregulation of ABO in CD and OP cell models.","https://schema.org",{"og:url":53,"og:type":88,"og:title":13,"og:site_name":59,"og:description":14},"article",{"robots":90,"canonical":53},"index,follow",{"doc_id":7,"site_id":25},{"code":4,"msg":5,"data":93},[94,98,102,106,111,116,121,124,129,132,136],{"id":21,"doc_module":4,"doc_module_name":47,"category_name":95,"show_sort_weight":96,"slug":97},"Story & Novel",90,"story-novel",{"id":48,"doc_module":4,"doc_module_name":47,"category_name":99,"show_sort_weight":100,"slug":101},"Literature",80,"literature",{"id":20,"doc_module":4,"doc_module_name":47,"category_name":103,"show_sort_weight":104,"slug":105},"Exam",70,"exam",{"id":107,"doc_module":4,"doc_module_name":47,"category_name":108,"show_sort_weight":109,"slug":110},5,"Comic",60,"comic",{"id":112,"doc_module":4,"doc_module_name":47,"category_name":113,"show_sort_weight":114,"slug":115},6,"Technology",50,"technology",{"id":117,"doc_module":4,"doc_module_name":47,"category_name":118,"show_sort_weight":119,"slug":120},7,"Healthcare",40,"healthcare",{"id":11,"doc_module":4,"doc_module_name":47,"category_name":12,"show_sort_weight":122,"slug":123},30,"research-report",{"id":125,"doc_module":4,"doc_module_name":47,"category_name":126,"show_sort_weight":127,"slug":128},9,"Religion & Spirituality",20,"religion-spirituality",{"id":127,"doc_module":4,"doc_module_name":47,"category_name":130,"show_sort_weight":127,"slug":131},"World Cup","world-cup",{"id":133,"doc_module":4,"doc_module_name":47,"category_name":134,"show_sort_weight":133,"slug":135},10,"Lifestyle","lifestyle",{"id":137,"doc_module":4,"doc_module_name":47,"category_name":138,"show_sort_weight":107,"slug":139},19,"General","general"]