{"status":"ok","message-type":"work","message-version":"1.0.0","message":{"indexed":{"date-parts":[[2026,8,24]],"date-time":"2026-08-24T18:02:10Z","timestamp":1787594530000,"version":"build-2736575974"},"reference-count":53,"publisher":"Oxford University Press (OUP)","issue":"3","license":[{"start":{"date-parts":[[2024,9,27]],"date-time":"2024-09-27T00:00:00Z","timestamp":1727395200000},"content-version":"vor","delay-in-days":0,"URL":"https:\/\/creativecommons.org\/licenses\/by-nc\/4.0\/"}],"funder":[{"name":"Antwerp University Valorisation"}],"content-domain":{"domain":[],"crossmark-restriction":false},"short-container-title":[],"published-print":{"date-parts":[[2025,3,5]]},"abstract":"<jats:title>Abstract<\/jats:title>\n               <jats:sec>\n                  <jats:title>Background and aims<\/jats:title>\n                  <jats:p>Mucosal healing is considered a key therapeutic endpoint in inflammatory bowel diseases (IBD) and comprises endoscopic improvement of inflammation without taking barrier healing into account. Mucins are critical components of the mucosal barrier function that give rise to structurally diverse isoforms. Unraveling disease-associated mucin isoforms that could act as an indication for barrier function would greatly enhance IBD management.<\/jats:p>\n               <\/jats:sec>\n               <jats:sec>\n                  <jats:title>Methods<\/jats:title>\n                  <jats:p>We present the intestinal mucin RNA isoform landscape in IBD and control patients using a targeted mucin isoform sequencing approach on a discovery cohort (n\u2005=\u2005106). Random Forest modeling (n\u2005=\u20051683 samples) with external validation (n\u2005=\u2005130 samples) identified unique mucin RNA isoform panels that accurately stratified IBD patients in multiple subpopulations based on inflammation, IBD subtype (Crohn\u2019s disease [CD], ulcerative colitis [UC]), and anatomical location of the intestinal tract (i.e. ileum, proximal colon, distal colon, and rectum).<\/jats:p>\n               <\/jats:sec>\n               <jats:sec>\n                  <jats:title>Results<\/jats:title>\n                  <jats:p>Particularly, the mucin RNA isoform panels obtained from the inflamed UC and CD distal colon showed high performance in distinguishing inflamed biopsies from their control counterparts (AUC of 93.3% and 91.1% in the training, 95.0% and 96.0% in the test, and 89.5% and 78.3% in the external validation datasets, respectively). Furthermore, the differentially expressed MUC4 (PB.1238.363), MUC5AC (PB.2811.15), MUC16 (ENST00000397910.8), and MUC1 (ENST00000462317.5 and ENST00000620103.4) RNA isoforms frequently occurred throughout the different panels highlighting their role in IBD pathogenesis.<\/jats:p>\n               <\/jats:sec>\n               <jats:sec>\n                  <jats:title>Conclusions<\/jats:title>\n                  <jats:p>We unveiled region-specific mucin RNA isoform panels capturing the heterogeneity of the IBD patient population and showing great potential to indicate barrier function in IBD patients.<\/jats:p>\n               <\/jats:sec>","DOI":"10.1093\/ecco-jcc\/jjae155","type":"journal-article","created":{"date-parts":[[2024,9,27]],"date-time":"2024-09-27T14:37:07Z","timestamp":1727447827000},"source":"Crossref","is-referenced-by-count":5,"title":["The Intestinal Mucin Isoform Landscape Reveals Region-Specific Biomarker Panels for Inflammatory Bowel Disease Patient Stratification"],"prefix":"10.1093","volume":"19","author":[{"ORCID":"https:\/\/orcid.org\/0000-0003-3063-2861","authenticated-orcid":false,"given":"Wout","family":"Arras","sequence":"first","affiliation":[{"name":"Laboratory of Experimental Medicine and Pediatrics, Faculty of Medicine and Health Sciences, University of Antwerp , Antwerp ,","place":["Belgium"]},{"name":"Infla-Med, Centre of Excellence, University of Antwerp , Antwerp ,","place":["Belgium"]}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Tom","family":"Breugelmans","sequence":"additional","affiliation":[{"name":"Laboratory of Experimental Medicine and Pediatrics, Faculty of Medicine and Health Sciences, University of Antwerp , Antwerp ,","place":["Belgium"]},{"name":"Infla-Med, Centre of Excellence, University of Antwerp , Antwerp ,","place":["Belgium"]}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Baptiste","family":"Oosterlinck","sequence":"additional","affiliation":[{"name":"Laboratory of Experimental Medicine and Pediatrics, Faculty of Medicine and Health Sciences, University of Antwerp , Antwerp ,","place":["Belgium"]},{"name":"Infla-Med, Centre of Excellence, University of Antwerp , Antwerp ,","place":["Belgium"]}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Joris G","family":"De Man","sequence":"additional","affiliation":[{"name":"Laboratory of Experimental Medicine and Pediatrics, Faculty of Medicine and Health Sciences, University of Antwerp , Antwerp ,","place":["Belgium"]},{"name":"Infla-Med, Centre of Excellence, University of Antwerp , Antwerp ,","place":["Belgium"]}],"role":[{"vocabulary":"crossref","role":"author"}]},{"ORCID":"https:\/\/orcid.org\/0000-0001-8699-8905","authenticated-orcid":false,"given":"Surbhi","family":"Malhotra-Kumar","sequence":"additional","affiliation":[{"name":"Laboratory of Medical Microbiology, Vaccine and Infectious Disease Institute, Faculty of Medicine and Health Sciences, University of Antwerp , Antwerp ,","place":["Belgium"]}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Steven","family":"Abrams","sequence":"additional","affiliation":[{"name":"Global Health Institute, Department of Family Medicine and Population Health, University of Antwerp , Antwerp ,","place":["Belgium"]},{"name":"Data Science Institute, Interuniversity Institute for Biostatistics and statistical Bioinformatics, University of\u00a0Hasselt , Diepenbeek ,","place":["Belgium"]}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Steven","family":"Van Laere","sequence":"additional","affiliation":[{"name":"Center for Oncological Research, Integrated Personalized and Precision Oncology Network, University of Antwerp , Antwerp ,","place":["Belgium"]}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Elisabeth","family":"Macken","sequence":"additional","affiliation":[{"name":"Division of Gastroenterology and Hepatology, Antwerp University Hospital , Edegem ,","place":["Belgium"]}],"role":[{"vocabulary":"crossref","role":"author"}]},{"ORCID":"https:\/\/orcid.org\/0000-0003-1092-7128","authenticated-orcid":false,"given":"Micha\u00ebl","family":"Somers","sequence":"additional","affiliation":[{"name":"Division of Gastroenterology and Hepatology, Antwerp University Hospital , Edegem ,","place":["Belgium"]}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Aranzazu","family":"Jauregui-Amezaga","sequence":"additional","affiliation":[{"name":"Division of Gastroenterology and Hepatology, Antwerp University Hospital , Edegem ,","place":["Belgium"]}],"role":[{"vocabulary":"crossref","role":"author"}]},{"ORCID":"https:\/\/orcid.org\/0000-0003-0327-6304","authenticated-orcid":false,"given":"Benedicte Y","family":"De Winter","sequence":"additional","affiliation":[{"name":"Laboratory of Experimental Medicine and Pediatrics, Faculty of Medicine and Health Sciences, University of Antwerp , Antwerp ,","place":["Belgium"]},{"name":"Infla-Med, Centre of Excellence, University of Antwerp , Antwerp ,","place":["Belgium"]},{"name":"Division of Gastroenterology and Hepatology, Antwerp University Hospital , Edegem ,","place":["Belgium"]}],"role":[{"vocabulary":"crossref","role":"author"}]},{"ORCID":"https:\/\/orcid.org\/0000-0002-1271-6191","authenticated-orcid":false,"given":"Annemieke","family":"Smet","sequence":"additional","affiliation":[{"name":"Laboratory of Experimental Medicine and Pediatrics, Faculty of Medicine and Health Sciences, University of Antwerp , Antwerp 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