Jonas Halfvarson

Articles in journals

• Bröms, G. , Forss, A. , Eriksson, J. , Askling, J. , Eriksson, C. , Halfvarson, J. , Linder, M. , Sun, J. & et al. (2025). Adult-onset inflammatory bowel disease and the risk of venous thromboembolism: a Swedish nationwide cohort study 2007-2021.  Scandinavian Journal of Gastroenterology. [BibTeX]
• Pertsinidou, E. , Salomon, B. , Bergemalm, D. , Salihovic, S. , Hedin, C. R. H. , Ling Lundström, M. , Keita, Å. V. , Magnusson, M. K. & et al. (2025). Anti-integrin αvβ6 IgG antibody as a diagnostic and prognostic marker in ulcerative colitis: A cross-sectional and longitudinal study defining a specific disease phenotype.  Journal of Crohn's & Colitis. [BibTeX]
• Everhov, Å. H. , Eberhardson, M. , Söderling, J. , Nordenvall, C. , Halfvarson, J. , Ludvigsson, J. F. , Olén, O. , Myrelid, P. & et al. (2025). Cumulative incidence and prevalence of perianal diseases in patients with inflammatory bowel disease and in the population: a nationwide Swedish study.  Scandinavian Journal of Gastroenterology, 60 (4), 349-354. [BibTeX]
• Hansen, S. H. , Maseng, M. G. , Grännö, O. , Vestergaard, M. V. , Bang, C. , Olsen, B. C. , Lund, C. , Olbjørn, C. & et al. (2025). Fecal Microbiome Reflects Disease State and Prognosis in Inflammatory Bowel Disease in an Adult Population-Based Inception Cohort.  Inflammatory Bowel Diseases. [BibTeX]
• Boulouis, C. , Mouchtaridi, E. , Müller, T. R. , Mak, J. Y. W. , Fairlie, D. P. , Bergman, P. , Michaëlsson, J. , Halfvarson, J. & et al. (2025). Human MAIT cell response profiles biased toward IL-17 or IL-10 are distinct effector states directed by the cytokine milieu.  Proceedings of the National Academy of Sciences of the United States of America, 122 (6). [BibTeX]
• Mårild, K. , Söderling, J. , Stephansson, O. , Axelrad, J. , Halfvarson, J. , Bröms, G. , Marsal, J. , Neovius, M. & et al. (2025). Inflammatory Bowel Disease, Periconceptional Disease Activity, and Risk of Major Congenital Anomalies: A Nationwide Cohort Study.  American Journal of Gastroenterology. [BibTeX]
• Bergemalm, D. , Baban, B. , Ljungqvist, O. & Halfvarson, J. (2025). Insulin sensitivity in moderately severe to acute severe ulcerative colitis.  Scandinavian Journal of Gastroenterology, 60 (3), 243-247. [BibTeX]
• Grännö, O. , Bergemalm, D. , Salomon, B. , Lindqvist, C. M. , Hedin, C. R. H. , Carlson, M. , Dannenberg, K. , Andersson, E. & et al. (2025). Preclinical protein signatures of Crohn's disease and ulcerative colitis: A nested case-control study within large population-based cohorts.  Gastroenterology, 168 (4), 741-753. [BibTeX]
• Karlqvist, S. , Sachs, M. C. , Eriksson, C. , Cao, Y. , Montgomery, S. , Ludvigsson, J. F. , Olén, O. & Halfvarson, J. (2025). Response to Dai et al.  American Journal of Gastroenterology, 120 (1), 260-261. [BibTeX]
• Mårild, K. , Söderling, J. , Axelrad, J. , Halfvarson, J. , Forss, A. , Michaëlsson, K. , Olén, O. , Ludvigsson, J. F. & et al. (2024). A nationwide cohort study of inflammatory bowel disease, histological activity and fracture risk.  Alimentary Pharmacology and Therapeutics, 60 (11-12), 1549-1560. [BibTeX]
• Honap, S. , Jairath, V. , Sands, B. E. , Dulai, P. S. , Higgins, P. D. , De Cruz, P. , Gutiérrez, A. , Kotze, P. G. & et al. (2024). Acute Severe Ulcerative Colitis: An International Delphi Consensus on Clinical Trial Design and Endpoints.  Clinical Gastroenterology and Hepatology. [BibTeX]
• Faye, A. S. , Axelrad, J. , Sun, J. , Halfvarson, J. , Söderling, J. , Olén, O. & Ludvigsson, J. F. (2024). Atherosclerosis as a Risk Factor of Inflammatory Bowel Disease: A Population-Based Case-Control Study.  American Journal of Gastroenterology, 119 (2), 313-322. [BibTeX]
• Sun, J. , Yao, J. , Olén, O. , Halfvarson, J. , Bergman, D. , Ebrahimi, F. , Carlsson, S. , Ludvigsson, J. & et al. (2024). Bidirectional association between inflammatory bowel disease and type 1 diabetes: a nationwide matched cohort and case-control study.  The Lancet Regional Health: Europe, 46. [BibTeX]
• Salomon, B. , Sudhakar, P. , Bergemalm, D. , Andersson, E. , Grännö, O. , Carlson, M. , Hedin, C. R. H. , Söderholm, J. D. & et al. (2024). Characterization of Inflammatory Bowel Disease Heterogeneity Using Serum Proteomics: A multicenter study.  Journal of Crohn's & Colitis. [BibTeX]
• Karlqvist, S. , Sachs, M. C. , Eriksson, C. , Cao, Y. , Montgomery, S. , Ludvigsson, J. F. , Olén, O. , Halfvarson, J. & et al. (2024). Comparative Risk of Serious Infection With Vedolizumab vs Anti-Tumor Necrosis Factor in Inflammatory Bowel Disease: Results From Nationwide Swedish Registers.  American Journal of Gastroenterology, 119 (2), 2480-2492. [BibTeX]
• Thunberg, J. , Grännö, O. , Bergemalm, D. , Eriksson, C. , Visuri, I. , Eberhardson, M. & Halfvarson, J. (2024). Comparative study of a point-of-care test and an enzyme-linked immunosorbent assay (ELISA) for infliximab levels.  Scandinavian Journal of Gastroenterology, 59 (2), 150-155. [BibTeX]
• Schreiber, S. , Danese, S. , Dignass, A. , Domènech, E. , Fantini, M. C. , Ferrante, M. , Halfvarson, J. , Hart, A. & et al. (2024). Defining Comprehensive Disease Control for use as a Treatment Target for Ulcerative Colitis in Clinical Practice: International Delphi Consensus Recommendations.  Journal of Crohn's & Colitis, 18 (1), 91-105. [BibTeX]
• Uchida, A. M. , Garber, J. J. , Pyne, A. , Peterson, K. , Roelstraete, B. , Olén, O. , Halfvarson, J. & Ludvigsson, J. F. (2024). Eosinophilic esophagitis is associated with increased risk of later inflammatory bowel disease in a nationwide Swedish population cohort.  United European Gastroenterology journal, 12 (1), 34-43. [BibTeX]
• Chen, J. , Zhang, H. , Fu, T. , Zhao, J. , Nowak, J. K. , Kalla, R. , Wellens, J. , Yuan, S. & et al. (2024). Exposure to air pollution increases susceptibility to ulcerative colitis through epigenetic alterations in CXCR2 and MHC class III region.  EBioMedicine, 110. [BibTeX]
• Ling Lundström, M. , Peterson, C. , Hedin, C. R. H. , Bergemalm, D. , Lampinen, M. , Magnusson, M. K. , Keita, Å. V. , Kruse, R. & et al. (2024). Faecal biomarkers for diagnosis and prediction of disease course in treatment-naïve patients with IBD.  Alimentary Pharmacology and Therapeutics, 60 (6), 765-777. [BibTeX]
• Sun, J. , Yao, J. , Olén, O. , Halfvarson, J. , Bergman, D. , Ebrahimi, F. , Sundström, J. & Ludvigsson, J. F. (2024). Familial coaggregation of inflammatory bowel disease with cardiovascular disease: a nationwide multigenerational cohort study.  Gut, 73 (11). [BibTeX]
• Mårild, K. , Söderling, J. , Axelrad, J. , Halfvarson, J. , Forss, A. , Olén, O. , Ludvigsson, J. F. , Olsson, M. & et al. (2024). Histologic activity in inflammatory bowel disease and risk of serious infections: A nationwide study.  Clinical Gastroenterology and Hepatology, 22 (4), 831-846. [BibTeX]
• Mårild, K. , Söderling, J. , Stephansson, O. , Axelrad, J. , Halfvarson, J. , Bröms, G. , Marsal, J. , Olén, O. & et al. (2024). Histological remission in inflammatory bowel disease and female fertility: A nationwide study.  Gastroenterology, 166 (5), 802-814.e18. [BibTeX]
• Salihovic, S. , Nyström, N. , Mathisen, C. B. , Kruse, R. , Olbjørn, C. , Andersen, S. , Noble, A. J. , Dorn-Rasmussen, M. & et al. (2024). Identification and validation of a blood- based diagnostic lipidomic signature of pediatric inflammatory bowel disease.  Nature Communications, 15 (1). [BibTeX]
• Ling Lundström, M. , Lampinen, M. , Carlson, M. & Halfvarson, J. (2024). Letter: Analysis of "Faecal Biomarkers for Diagnosis and Prediction of Disease Course in Treatment-Naïve Patients With IBD"-Authors' Reply.  Alimentary Pharmacology and Therapeutics, 61 (1), 220-221. [BibTeX]
• Sun, J. , Yao, J. , Olén, O. , Halfvarson, J. , Bergman, D. , Ebrahimi, F. , Roelstraete, B. , Rosengren, A. & et al. (2024). Long-term risk of myocarditis in patients with inflammatory bowel disease: a nationwide cohort study in Sweden.  American Journal of Gastroenterology, 119 (9), 1866-1874. [BibTeX]
• Rejler, M. , Füchtbauer, J. D. , Davíðsdóttir, L. G. , Fejrskov, A. , Söderholm, J. D. , Christensen, R. , Andersen, V. , Repsilber, D. & et al. (2024). Nordic inflammatory bowel disease treatment strategy trial: protocol for the NORDTREAT randomised controlled biomarker-strategy trial.  BMJ Open, 14 (7). [BibTeX]
• Fejrskov, A. , Füchtbauer, J. D. , Davíðsdóttir, L. G. , Halfvarson, J. , Høivik, M. L. , Jensen, M. D. , Mortensen, J. H. , Nielsen, L. N. & et al. (2024). Novel biomarker profiles to improve individual diagnosis and prognosis in patients with suspected inflammatory bowel disease: protocol for the Nordic inception cohort study (NORDTREAT).  BMJ Open, 14 (5). [BibTeX]
• Lamichhane, N. , Melas, N. , Bergqvist, V. , Ekholm, N. , Olén, O. , Ludvigsson, J. F. , Hjortswang, H. , Marsal, J. & et al. (2024). Real-World Outcomes of Patients Starting Intravenous and Transitioning to Subcutaneous Vedolizumab in Inflammatory Bowel Disease.  Digestive Diseases and Sciences, 69 (6), 2175-2183. [BibTeX]
• Marinica Grando, L. , Halfvarson, J. & van Nieuwenhoven, M. A. (2024). Rectal Sensory and Compliance Testing: A Method Comparison Study between High-Resolution Anorectal Manometry and Barostat Investigations.  Diagnostics, 14 (4). [BibTeX]
• Sun, J. , Yao, J. , Olén, O. , Halfvarson, J. , Bergman, D. , Ebrahimi, F. , Rosengren, A. , Sundstrom, J. & et al. (2024). Risk of heart failure in inflammatory bowel disease: a Swedish population-based study.  European Heart Journal, 45 (28), 2493-2504. [BibTeX]
• Shrestha, S. , Brand, J. S. , Osooli, M. , Eriksson, C. , Schoultz, I. , Askling, J. , Jess, T. , Montgomery, S. & et al. (2024). Spondyloarthritis in first-degree relatives and spouses of patients with inflammatory bowel disease: A nationwide population-based cohort study from Sweden.  Journal of Crohn's & Colitis, 18 (9), 1371-1380. [BibTeX]
• Kalla, R. , Adams, A. T. , Nowak, J. K. , Bergemalm, D. , Vatn, S. , Ventham, N. T. , Kennedy, N. A. , Ricanek, P. & et al. (2023). Analysis of systemic epigenetic alterations in inflammatory bowel disease: defining geographical, genetic, and immune-inflammatory influences on the circulating methylome.  Journal of Crohn's & Colitis, 17 (2), 170-184. [BibTeX]
• Wang, K. , Olén, O. , Emilsson, L. , Khalili, H. , Halfvarson, J. , Song, M. & Ludvigsson, J. F. (2023). Association of inflammatory bowel disease in first-degree relatives with risk of colorectal cancer: A nationwide case-control study in Sweden.  International Journal of Cancer, 152 (11), 2303-2313. [BibTeX]
• Chen, J. , Zhou, Y. , Sun, Y. , Yuan, S. , Kalla, R. , Sun, J. , Zhao, J. , Wang, L. & et al. (2023). Bidirectional Mendelian randomization analysis provides evidence for the causal involvement of dysregulation of CXCL9, CCL11 and CASP8 in the pathogenesis of ulcerative colitis.  Journal of Crohn's & Colitis, 17 (5), 777-785. [BibTeX]
• Östensson, M. , Björkqvist, O. , Guo, A. , Størdal, K. , Halfvarson, J. , Mårild, K. & Ludvigsson, J. (2023). Epidemiology, validation, and clinical characteristics of inflammatory bowel disease: the ABIS birth cohort study.  BMC Gastroenterology, 23 (1). [BibTeX]
• Lundström, M. L. , Peterson, C. , Lampinen, M. , Hedin, C. R. H. , Keita, Å. V. , Kruse, R. , Magnusson, M. K. , Lindqvist, C. M. & et al. (2023). Fecal Biomarkers of Neutrophil and Eosinophil Origin Reflect the Response to Biological Therapy and Corticosteroids in Patients With Inflammatory Bowel Disease.  Clinical and Translational Gastroenterology, 14 (8). [BibTeX]
• Liu, Z. , Halfvarson, J. & Guo, Z. (2023). Genetic architecture of the inflammatory bowel diseases across East Asian and European ancestries.  Nature Genetics, 55 (5), 796-806. [BibTeX]
• Peyrin-Biroulet, L. , Rahier, J. , Kirchgesner, J. , Abitbol, V. , Sebastian, S. , Armuzzi, A. , Karmiris, K. , Gisbert, J. P. & et al. (2023). I-CARE, a European prospective cohort study assessing safety and effectiveness of biologics in inflammatory bowel disease.  Clinical Gastroenterology and Hepatology, 21 (3), 771-788.e10. [BibTeX]
• Leibovitzh, H. , Lee, S. H. , Raygoza Garay, J. A. , Espin-Garcia, O. , Xue, M. , Neustaeter, A. , Goethel, A. , Huynh, H. Q. & et al. (2023). Immune response and barrier dysfunction-related proteomic signatures in preclinical phase of Crohn's disease highlight earliest events of pathogenesis.  Gut, 72 (8), 1462-1471. [BibTeX]
• Everhov, Å. H. , Söderling, J. , Befrits, G. , Khalili, H. , Bröms, G. , Neovius, M. , Askling, J. , Halfvarson, J. & et al. (2023). Increasing healthcare costs in inflammatory bowel disease 2007-2020 in Sweden.  Alimentary Pharmacology and Therapeutics, 58 (7), 692-703. [BibTeX]
• Olén, O. , Smedby, K. E. , Erichsen, R. , Pedersen, L. , Halfvarson, J. , Hallqvist-Everhov, Å. , Bryder, N. , Askling, J. & et al. (2023). Increasing risk of lymphoma over time in Crohn's disease but not in ulcerative colitis: a Scandinavian cohort study.  Clinical Gastroenterology and Hepatology, 21 (12), 3132-3142. [BibTeX]
• Axelrad, J. , Olén, O. , Söderling, J. , Roelstraete, B. , Khalili, H. , Song, M. , Faye, A. , Eberhardson, M. & et al. (2023). Inflammatory Bowel Disease and Risk of Colorectal Polyps: A nationwide population-based cohort study from Sweden.  Journal of Crohn's & Colitis, 17 (9), 1395-1409. [BibTeX]
• Visuri, I. , Eriksson, C. , Karlqvist, S. , Lykiardopoulos, B. , Karlén, P. , Grip, O. , Söderman, C. , Almer, S. & et al. (2023). Long-term outcomes of vedolizumab in inflammatory bowel disease: the Swedish prospective multicentre SVEAH extension study.  Therapeutic Advances in Gastroenterology, 16. [BibTeX]
• Sun, J. , Roelstraete, B. , Svennberg, E. , Halfvarson, J. , Sundström, J. , Forss, A. , Olén, O. & Ludvigsson, J. F. (2023). Long-term risk of arrhythmias in patients with inflammatory bowel disease: A population-based, sibling-controlled cohort study.  PLoS Medicine, 20 (10). [BibTeX]
• Sun, J. , Fang, F. , Olén, O. , Song, M. , Halfvarson, J. , Roelstraete, B. , Khalili, H. & Ludvigsson, J. F. (2023). Long-term risk of inflammatory bowel disease after endoscopic biopsy with normal mucosa: A population-based, sibling-controlled cohort study in Sweden.  PLoS Medicine, 20 (2). [BibTeX]
• Sun, J. , Halfvarson, J. , Appelros, P. , Bergman, D. , Ebrahimi, F. , Roelstraete, B. , Olén, O. & Ludvigsson, J. F. (2023). Long-term Risk of Stroke in Patients With Inflammatory Bowel Disease: A Population-Based, Sibling-Controlled Cohort Study, 1969-2019.  Neurology, 101 (6), e653-e664. [BibTeX]
• Nyström, N. , Prast-Nielsen, S. , Correia, M. , Globisch, D. , Engstrand, L. , Schuppe Koistinen, I. & Halfvarson, J. (2023). Mucosal and plasma metabolomes in new-onset paediatric inflammatory bowel disease: correlations with disease characteristics and plasma inflammation protein markers.  Journal of Crohn's & Colitis, 17 (3), 418-432. [BibTeX]
• D'Amico, F. , Solitano, V. , Magro, F. , Olivera, P. A. , Halfvarson, J. , Rubin, D. , Dignass, A. , Al Awadhi, S. & et al. (2023). Practical Management of Biosimilar Use in Inflammatory Bowel Disease (IBD): A Global Survey and an International Delphi Consensus.  Journal of Clinical Medicine, 12 (19). [BibTeX]
• Shubhakar, A. , Jansen, B. C. , Adams, A. T. , Reiding, K. R. , Ventham, N. T. , Kalla, R. , Bergemalm, D. , Urbanowicz, P. A. & et al. (2023). Serum N-Glycomic Biomarkers Predict Treatment Escalation in Inflammatory Bowel Disease.  Journal of Crohn's & Colitis, 17 (6), 919-932. [BibTeX]
• Sun, J. , Halfvarson, J. , Bergman, D. , Ebrahimi, F. , Roelstraete, B. , Lochhead, P. , Song, M. , Olén, O. & et al. (2023). Statin use and risk of colorectal cancer in patients with inflammatory bowel disease.  eClinicalMedicine, 63. [BibTeX]
• Horrigan, J. M. , Louis, E. , Spinelli, A. , Travis, S. , Moum, B. , Salwen-Deremer, J. , Halfvarson, J. , Panaccione, R. & et al. (2023). The Real-World Global Use of Patient-Reported Outcomes for the Care of Patients With Inflammatory Bowel Disease.  Crohn's & colitis 360, 5 (2). [BibTeX]
• Holmgren, J. , Fröborg, A. , Visuri, I. , Halfvarson, J. , Hjortswang, H. , Karling, P. , Myrelid, P. , Olén, O. & et al. (2023). The Risk of Serious Infections Before and After Anti-TNF Therapy in Inflammatory Bowel Disease: A Retrospective Cohort Study.  Inflammatory Bowel Diseases, 19 (3), 339-348. [BibTeX]
• Forss, A. , Clements, M. , Myrelid, P. , Strid, H. , Söderman, C. , Wagner, A. , Andersson, D. , Hjelm, F. & et al. (2023). Ustekinumab Is Associated with Real-World Long-Term Effectiveness and Improved Health-Related Quality of Life in Crohn's Disease.  Digestive Diseases and Sciences, 68 (1), 65-76. [BibTeX]
• Eriksson, C. , Söderling, J. , Karlqvist, S. , Bröms, G. , Everhov, Å. H. , Bergemalm, D. , Ludvigsson, J. F. , Olén, O. & et al. (2023). Ustekinumab Versus Anti-tumour Necrosis Factor Alpha Agents as Second-Line Biologics in Crohn's Disease.  Digestive Diseases and Sciences, 68 (7), 3119-3128. [BibTeX]
• Forss, A. , Clements, M. , Bergman, D. , Roelstraete, B. , Kaplan, G. G. , Myrelid, P. , Halfvarson, J. , Olén, O. & et al. (2022). A nationwide cohort study of the incidence of inflammatory bowel disease in Sweden from 1990 to 2014.  Alimentary Pharmacology and Therapeutics, 55 (6), 691-699. [BibTeX]
• Halfvarson, J. , Ludvigsson, J. F. , Bresso, F. , Askling, J. , Sachs, M. C. & Olén, O. (2022). Age determines the risk of familial inflammatory bowel disease: A nationwide study.  Alimentary Pharmacology and Therapeutics. [BibTeX]
• Shrestha, S. , Brand, J. S. , Järås, J. , Schoultz, I. , Montgomery, S. , Askling, J. , Ludvigsson, J. F. , Olen, O. & et al. (2022). Association between inflammatory bowel disease and spondyloarthritis: findings from a nationwide study in Sweden.  Journal of Crohn's & Colitis, 16 (1), 1540-1550. [BibTeX]
• Mårild, K. , Söderling, J. , Lebwohl, B. , Green, P. H. , Pinto-Sanchez, M. I. , Halfvarson, J. , Roelstraete, B. , Olén, O. & et al. (2022). Association of Celiac Disease and Inflammatory Bowel Disease: A Nationwide Register-Based Cohort Study.  American Journal of Gastroenterology, 117 (9), 1471-1481. [BibTeX]
• Nowak, J. K. , Adams, A. T. , Kalla, R. , Lindstrøm, J. C. , Vatn, S. , Bergemalm, D. , Keita, Å. V. , Gomollón, F. & et al. (2022). Characterization of the circulating transcriptomic landscape in inflammatory bowel disease provides evidence for dysregulation of multiple transcription factors including NFE2, SPI1, CEBPB, and IRF2.  Journal of Crohn's & Colitis, 16 (8), 1255-1268. [BibTeX]
• Everhov, Å. H. , Ludvigsson, J. F. , Järås, J. , Erichsen, R. , Pedersen, L. , Halfvarson, J. , Askling, J. , Ekbom, A. & et al. (2022). Colorectal Cancer in Childhood-onset Inflammatory Bowel Disease: A Scandinavian Register-based Cohort Study, 1969-2017.  Journal of Pediatric Gastroenterology and Nutrition - JPGN, 75 (4), 480-484. [BibTeX]
• Everhov, Å. H. , Erichsen, R. , Järås, J. , Pedersen, L. , Halfvarson, J. , Askling, J. , Ekbom, A. , Ludvigsson, J. F. & et al. (2022). Colorectal cancer in elderly-onset inflammatory bowel disease: A 1969-2017 Scandinavian register-based cohort study.  Alimentary Pharmacology and Therapeutics, 56 (7), 1168-1182. [BibTeX]
• Juzenas, S. , Hübenthal, M. , Lindqvist, C. M. , Kruse, R. , Steiert, T. A. , Degenhardt, F. , Schulte, D. , Nikolaus, S. & et al. (2022). Detailed transcriptional landscape of peripheral blood points to increased neutrophil activation in treatment-naïve inflammatory bowel disease.  Journal of Crohn's & Colitis, 16 (7), 1097-1109. [BibTeX]
• Moraes Holst, L. , Halfvarson, J. , Carlson, M. , Hedin, C. , Kruse, R. , Lindqvist, C. M. , Bergemalm, D. , Almér, S. & et al. (2022). Downregulated Mucosal Autophagy, Alpha Kinase-1 and IL-17 Signaling Pathways in Active and Quiescent Ulcerative Colitis.  Clinical and Experimental Gastroenterology, 15, 129-144. [BibTeX]
• Mårild, K. , Söderling, J. , Stephansson, O. , Axelrad, J. , Halfvarson, J. , Bröms, G. , Marsal, J. , Olén, O. & et al. (2022). Histological remission in inflammatory bowel disease and risk of adverse pregnancy outcomes: A nationwide study.  eClinicalMedicine, 53. [BibTeX]
• Caron, B. , Abreu, M. T. , Siegel, C. A. , Panaccione, R. , Sands, B. E. , Dignass, A. , Turner, D. , Dotan, I. & et al. (2022). IOIBD Recommendations for Clinical Trials in Ulcerative Proctitis: the PROCTRIAL Consensus.  Clinical Gastroenterology and Hepatology, 20 (11), 2169-2627.e1. [BibTeX]
• Zhulina, Y. , Udumyan, R. , Tysk, C. & Halfvarson, J. (2022). Mortality in patients with Crohn's disease in Örebro, Sweden 1963-2010.  Scandinavian Journal of Gastroenterology, 57 (2), 153-164. [BibTeX]
• Vatn, S. S. , Lindstrøm, J. C. , Moen, A. E. F. , Brackmann, S. , Tannæs, T. M. , Olbjørn, C. , Bergemalm, D. , Keita, Å. V. & et al. (2022). Mucosal Gene Transcript Signatures in Treatment Naïve Inflammatory Bowel Disease: A Comparative Analysis of Disease to Symptomatic and Healthy Controls in the European IBD-Character Cohort.  Clinical and Experimental Gastroenterology, 15, 5-25. [BibTeX]
• Ludvigsson, J. F. , Sun, J. , Olén, O. , Song, M. , Halfvarson, J. , Roelstraete, B. , Khalili, H. & Fang, F. (2022). Normal Gastrointestinal Mucosa at Biopsy and Overall Mortality: Nationwide Population-Based Cohort Study.  Clinical Epidemiology, 14, 889-900. [BibTeX]
• Sun, J. , Fang, F. , Olén, O. , Song, M. , Halfvarson, J. , Roelstraete, B. , Khalili, H. & Ludvigsson, J. F. (2022). Normal gastrointestinal mucosa at biopsy and subsequent cancer risk: nationwide population-based, sibling-controlled cohort study.  BMC Cancer, 22 (1). [BibTeX]
• Everhov, Å. H. , Kalman, T. D. , Söderling, J. , Nordenvall, C. , Halfvarson, J. , Ekbom, A. , Ludvigsson, J. F. , Olén, O. & et al. (2022). Probability of Stoma in Incident Patients With Crohn's Disease in Sweden 2003-2019: A Population-based Study.  Inflammatory Bowel Diseases, 28 (8), 1160-1168. [BibTeX]
• Salomon, B. , Bergemalm, D. & Halfvarson, J. (2022). Prognostic Biosignatures at Ileocecal Resection: Hope or Reality?.  Journal of Crohn's & Colitis, 16 (6), 873-875. [BibTeX]
• Thunberg, J. , Björkqvist, O. , Hedin, C. R. H. , Forss, A. , Söderman, C. , Bergemalm, D. , Olén, O. , Hjortswang, H. & et al. (2022). Ustekinumab treatment in ulcerative colitis: Real-world data from the Swedish inflammatory bowel disease quality register.  United European Gastroenterology journal, 10 (7), 631-639. [BibTeX]
• Ludvigsson, J. F. , Holmgren, J. , Grip, O. , Halfvarson, J. , Askling, J. , Sachs, M. C. & Olén, O. (2021). Adult-onset inflammatory bowel disease and rate of serious infections compared to the general population: a nationwide register-based cohort study 2002-2017.  Scandinavian Journal of Gastroenterology, 56 (10), 1152-1162. [BibTeX]
• Ludvigsson, J. F. , Olén, O. , Larsson, H. , Halfvarson, J. , Almqvist, C. , Lichtenstein, P. & Butwicka, A. (2021). Association between inflammatory bowel disease and psychiatric morbidity and suicide: A Swedish nationwide population-based cohort study with sibling comparisons.  Journal of Crohn's & Colitis, 15 (11), 1824-1836. [BibTeX]
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• Anedda, F. , Zucchelli, M. , Schepis, D. , Hellquist, A. , Corrado, L. , D'Alfonso, S. , Achour, A. , McInerney, G. & et al. (2011). Multiple polymorphisms affect expression and function of the neuropeptide S receptor (NPSR1).  PLOS ONE, 6 (12), e29523. [BibTeX]
• Willing, B. P. , Dicksved, J. , Halfvarson, J. , Andersson, A. F. , Lucio, M. , Zheng, Z. , Järnerot, G. , Tysk, C. & et al. (2010). A pyrosequencing study in twins shows that gastrointestinal microbial profiles vary with inflammatory bowel disease phenotypes.  Gastroenterology, 139 (6), 1844-1854.e1. [BibTeX]
• Törkvist, L. , Halfvarson, J. , Ong, R. T. H. , Lördal, M. , Sjöqvist, U. , Bresso, F. , Björk, J. , Befrits, R. & et al. (2010). Analysis of 39 Crohn's disease risk loci in Swedish inflammatory bowel disease patients.  Inflammatory Bowel Diseases, 16 (6), 907-909. [BibTeX]
• Gustavsson, A. , Järnerot, G. , Hertervig, E. , Friis-Liby, I. , Blomquist, L. , Karlén, P. , Grännö, C. , Vilien, M. & et al. (2010). Clinical trial: colectomy after rescue therapy in ulcerative colitis-3-year follow-up of the Swedish-Danish controlled infliximab study.  Alimentary Pharmacology and Therapeutics, 32 (8), 984-989. [BibTeX]
• McGovern, D. P. B. , Gardet, A. , Törkvist, L. , Goyette, P. , Essers, J. , Taylor, K. D. , Neale, B. M. , Ong, R. T. H. & et al. (2010). Genome-wide association identifies multiple ulcerative colitis susceptibility loci.  Nature Genetics, 42 (4), 332-337. [BibTeX]
• Franke, A. , McGovern, D. P. B. , Barrett, J. C. , Wang, K. , Radford-Smith, G. L. , Ahmad, T. , Lees, C. W. , Balschun, T. & et al. (2010). Genome-wide meta-analysis increases to 71 the number of confirmed Crohn's disease susceptibility loci.  Nature Genetics, 42 (12), 1118-1125. [BibTeX]
• Schoultz, I. , Verma, D. , Halfvarson, J. , Törkvist, L. , Fredrikson, M. , Sjöqvist, U. , Lördal, M. , Tysk, C. & et al. (2009). Combined polymorphisms in genes encoding the inflammasome components NALP3 and CARD8 confer susceptibility to Crohn's disease in Swedish men.  American Journal of Gastroenterology, 104 (5), 1180-1188. [BibTeX]
• Grip, O. , Halfvarson, J. , Carlson, M. & Sternby, B. (2009). Diagnosen IBD måste grundas på bred bas: [The diagnosis of IBD must have a wide foundation].  Läkartidningen, 106 (45), 2984-2986. [BibTeX]
• Kaminsky, Z. A. , Tang, T. , Wang, S. , Ptak, C. , Oh, G. H. T. , Wong, A. H. C. , Feldcamp, L. A. , Virtanen, C. & et al. (2009). DNA methylation profiles in monozygotic and dizygotic twins.  Nature Genetics, 41 (2), 240-245. [BibTeX]
• Einarsdottir, E. , Koskinen, L. L. E. , Dukes, E. , Kainu, K. , Suomela, S. , Lappalainen, M. , Ziberna, F. , Korponay-Szabo, I. R. & et al. (2009). IL23R in the Swedish, Finnish, Hungarian and Italian populations: association with IBD and psoriasis, and linkage to celiac disease.  BMC Medical Genetics, 10 (8). [BibTeX]
• Jansson, J. , Willing, B. , Lucio, M. , Fekete, A. , Dicksved, J. , Halfvarson, J. , Tysk, C. & Schmitt-Kopplin, P. (2009). Metabolomics reveals metabolic biomarkers of Crohn's disease.  PloS one, 4 (7), e6386. [BibTeX]
• Almer, S. , Befrits, R. , Eriksson, A. S. , Halfvarson, J. , Hindorf, U. & Löfberg, R. (2009). Modern läkemedelsterapi vid Crohn  [Current drug therapy in Crohn disease]: nationella riktlinjer [national guidelines].  Läkartidningen, 106 (45), 2988-2993. [BibTeX]
• Zucchelli, M. , Torkvist, L. , Halfvarson, J. , Söderhäll, C. , Lee, Y. , Löfberg, R. , Kere, J. & D ´Amato, M. (2009). No association between the eczema genes COL29A1 and IL31 and inflammatory bowel disease.  Inflammatory Bowel Diseases, 15 (7), 961-962. [BibTeX]
• Zucchelli, M. , Torkvist, L. , Bresso, F. , Halfvarson, J. , Hellquist, A. , Anedda, F. , Assadi, G. , Lindgren, G. B. & et al. (2009). PepT1 oligopeptide transporter (SLC15A1) gene polymorphism in inflammatory bowel disease.  Inflammatory Bowel Diseases, 15 (10), 1562-1569. [BibTeX]
• Verberkmoes, N. C. , Russell, A. L. , Shah, M. , Godzik, A. , Rosenquist, M. , Halfvarson, J. , Lefsrud, M. G. , Apajalahti, J. & et al. (2009). Shotgun metaproteomics of the human distal gut microbiota.  The ISME Journal, 3 (2), 179-189. [BibTeX]
• Halfvarson, J. & Järnerot, G. (2009). Treatment of choice for acute severe steroid-refractory ulcerative colitis is remicade.  Inflammatory Bowel Diseases, 15 (1), 143-145. [BibTeX]
• Willing, B. , Halfvarson, J. , Dicksved, J. , Rosenquist, M. , Järnerot, G. , Engstrand, L. , Tysk, C. & Jansson, J. K. (2009). Twin studies reveal specific imbalances in the mucosa-associated microbiota of patients with ileal Crohn's disease.  Inflammatory Bowel Diseases, 15 (5), 653-660. [BibTeX]
• Halfvarson, J. , Dicksved, J. , Rosenquist, M. , Willing, E. , Järnerot, G. , Engstrand, L. , Jansson, J. K. & Tysk, C. (2008). Bakteriefloran hos tvillingar med Crohns sjukdom.  Gastrokuriren, 13 (29 PO-08). [BibTeX]
• Vandewalle-El Khoury, P. , Colombel, J. , Joossens, S. , Standaert-Vitse, A. , Collot, M. , Halfvarson, J. , Ayadi, A. , Landers, C. J. & et al. (2008). Detection of antisynthetic mannoside antibodies (ASigmaMA) reveals heterogeneity in the ASCA response of Crohn's disease patients and contributes to differential diagnosis, stratification, and prediction.  American Journal of Gastroenterology, 103 (4), 949-957. [BibTeX]
• Dicksved, J. , Halfvarson, J. , Rosenquist, M. , Järnerot, G. , Tysk, C. , Apajalahti, J. , Engstrand, L. & Jansson, J. K. (2008). Molecular analysis of the gut microbiota of identical twins with Crohn's disease.  The ISME Journal, 2 (7), 716-727. [BibTeX]
• Nyhlin, N. , Bergman, J. , Bohr, J. , Gustavsson, A. , Halfvarson, J. , Salén, E. , Sandberg Gertzén, H. & Tysk, C. (2008). Plasmaferes vid svår läkemedelsutlöst kolestas.  Gastrokuriren, 13 (33), PO-16. [BibTeX]
• Halfvarson, J. , Jess, T. , Bodin, L. , Järnerot, G. , Munkholm, P. , Binder, V. & Tysk, C. (2007). Longitudinal concordance for clinical characteristics in a Swedish-Danish twin population with inflammatory bowel disease.  Inflammatory Bowel Diseases, 13 (12), 1536-1544. [BibTeX]
• Gustavsson, A. , Halfvarson, J. , Magnuson, A. , Sandberg-Gertzén, H. , Tysk, C. & Järnerot, G. (2007). Long-term colectomy rate after intensive intravenous corticosteroid therapy for ulcerative colitis prior to the immunosuppressive treatment era.  American Journal of Gastroenterology, 102 (11), 2513-2519. [BibTeX]
• Järnerot, G. , Halfvarson, J. & Tysk, C. (2007). Twin studies in inflammatory bowel disease: a review.  Austral - Asian Journal of Cancer, 6 (1), 29-33. [BibTeX]
• Bodger, K. , Halfvarson, J. , Dodson, A. R. , Campbell, F. , Wilson, S. , Lee, R. , Lindberg, E. , Järnerot, G. & et al. (2006). Altered colonic glycoprotein expression in unaffected monozygotic twins of inflammatory bowel disease patients.  Gut, 55 (7), 973-977. [BibTeX]
• Halfvarson, J. , Jess, T. , Magnuson, A. , Montgomery, S. M. , Orholm, M. , Tysk, C. , Binder, V. & Järnerot, G. (2006). Environmental factors in inflammatory bowel disease: a co-twin control study of a Swedish-Danish twin population.  Inflammatory Bowel Diseases, 12 (10), 925-933. [BibTeX]
• Halfvarson, J. (2006). Infliximab är indicerat även vid ulcerös kolit.  Läkartidningen, 103 (13), 1013-1013. [BibTeX]
• Järnerot, G. , Halfvarson, J. & Tysk, C. (2006). Twin studies in inflammatory bowel disease: a review.  Recent Advances and Research Updates (7), 143-7. [BibTeX]
• Halfvarson, J. , Standaert-Vitse, A. , Järnerot, G. , Sendid, B. , Jouault, T. , Bodin, L. , Duhamel, A. , Colombel, J. F. & et al. (2005). Anti-Saccharomyces cerevisiae antibodies in twins with inflammatory bowel disease.  Gut, 54 (9), 1237-1243. [BibTeX]
• Halfvarson, J. , Bresso, F. , D ´Amato, M. , Järnerot, G. , Pettersson, S. & Tysk, C. (2005). CARD15/NOD2 polymorphisms do not explain concordance of Crohn´s disease in Swedish monozygotic twins.  Digestive and Liver Disease, 37 (10), 768-762. [BibTeX]
• Gustavsson, A. , Halfvarson, J. , Sandberg-Gertzén, H. , Tysk, C. & Järnerot, G. (2005). Tio års uppföljning av patienter behandlade för svår attack av ulcerös kolit.  Sv Läkaresällskapets Handl, Hygiea. [BibTeX]
• Halfvarson, J. , Bodin, L. , Tysk, C. , Lindberg, E. & Järnerot, G. (2003). Inflammatory bowel disease in a Swedish twin cohort: a long-term follow-up of concordance and clinical characteristics.  Gastroenterology, 124 (7), 1767-1773. [BibTeX]
• Halfvarson, J. (2002). Stor och tung men med bra tangentbord [Big and heavy but the keyboard is good].  Läkartidningen, 99 (13), 1478-1478. [BibTeX]
• Halfvarson, J. , Heijne, N. , Ljungman, P. , Ham, M. N. , Holmgren, G. & Tomson, G. (2000). Knowing when but not how!: mothers' perceptions and use of antibiotics in a rural area of Viet Nam.  Tropical doctor, 30 (1), 6-10. [BibTeX]
• Halfvarson, J. & Loogna, P. (1997). Svårt avgöra om full och arg har skallskada [Difficult to diagnose head injuries in drunk and violent persons].  Läkartidningen, 94 (42), 3719-3722. [BibTeX]

Articles, reviews/surveys

• Fiorino, G. , Ananthakrishnan, A. , Cohen, R. D. , Cross, R. K. , Deepak, P. , Farraye, F. A. , Halfvarson, J. & Steinhart, A. H. (2025). Accelerating Earlier Access to Anti-TNF-α Agents with Biosimilar Medicines in the Management of Inflammatory Bowel Disease.  Journal of Clinical Medicine, 14 (5). [BibTeX]
• Abushamma, S. , Yadete, T. , Nero, N. , Falloon, K. , Parker, C. E. , Abreu, M. T. , Ahuja, V. , Armuzzi, A. & et al. (2025). Definitions, Diagnosis and Management of Postoperative Recurrence in Crohn's Disease Patients with Permanent Ileostomy: A Systematic Review and Meta-Analysis.  Journal of Crohn's & Colitis, 19 (4). [BibTeX]
• Wiland, P. , Both, C. , Gaylis, N. B. , Cohen, R. D. , Halfvarson, J. , Lemke, L. , von Richter, O. & Blauvelt, A. (2025). Efficacy, Safety, and Immunogenicity of SDZ-ADL, an Adalimumab Biosimilar, in Biologic-Naïve and Switched Patients with Immune-Mediated Inflammatory Diseases: A Literature Review.  Advances in Therapy, 42 (3), 1360-1392. [BibTeX]
• Andersen, V. , Pingel, J. , Søfelt, H. L. , Hikmat, Z. , Johansson, M. , Pedersen, V. S. , Bertelsen, B. , Carlsson, A. & et al. (2024). Sex and gender in inflammatory bowel disease outcomes and research.  The Lancet Gastroenterology & Hepatology, 9 (11), 1041-1051. [BibTeX]
• Franks, P. W. , Melén, E. , Friedman, M. , Sundström, J. , Kockum, I. , Klareskog, L. , Almqvist, C. , Bergen, S. E. & et al. (2021). Technological readiness and implementation of genomic-driven precision medicine for complex diseases.  Journal of Internal Medicine, 290 (3), 602-620. [BibTeX]
• Hirten, R. P. , Lakatos, P. L. , Halfvarson, J. & Colombel, J. F. (2020). A Users Guide to De-escalating Immunomodulator and Biologic Therapy in Inflammatory Bowel Disease.  Clinical Gastroenterology and Hepatology, 18 (6), 1336-1345. [BibTeX]
• Ludvigsson, J. F. , Andersson, M. , Bengtsson, J. , Eberhardson, M. , Fagerberg, U. L. , Grip, O. , Halfvarson, J. , Hjortswang, H. & et al. (2019). Swedish Inflammatory Bowel Disease Register (SWIBREG): a nationwide quality register.  Scandinavian Journal of Gastroenterology, 54 (9), 1089-1101. [BibTeX]
• Danese, S. , Allez, M. , van Bodegraven, A. A. , Dotan, I. , Gisbert, J. P. , Hart, A. , Lakatos, P. L. , Magro, F. & et al. (2019). Unmet Medical Needs in Ulcerative Colitis: An Expert Group Consensus.  Digestive Diseases, 37 (4), 266-283. [BibTeX]
• Halfvarson, J. , Cummings, F. , Grip, O. & Savoye, G. (2018). Inflammatory bowel disease registries for collection of patient iron parameters in Europe.  World Journal of Gastroenterology, 24 (10), 1063-1071. [BibTeX]
• Ek, W. E. , D'Amato, M. & Halfvarson, J. (2014). The history of genetics in inflammatory bowel disease.  Annals of Gastroenterology, 27 (4), 294-303. [BibTeX]

Chapters in books

• Halfvarson, J. (2013). Genetic epidemiology of inflammatory bowel disease, early twin and family studies. In: D’Amato M, Rioux J., Molecular Genetics of Inflammatory Bowel Disease (pp. 23-43). USA: Springer. [BibTeX]
• Halfvarson, J. (2009). Ulcerös kolit. In:  Utdrag ur Medicinska mag- och tarmsjukdomar. Lund: Studentlitteratur AB. [BibTeX]
• Halfvarson, J. (2008). Ulcerös kolit. In: Henry Nyhlin, Medicinska mag- och tarmsjukdomar (pp. 371-382). Lund: Studentlitteratur. [BibTeX]

Conference papers

• Nowak, J. , Noble, A. , Gordon, H. , Harbord, M. , Blad, W. , Bergemalm, D. , Møller, F. T. , Ahmad, T. & et al. (2025). Analysis of the circulating methylome in 155 IBD-discordant twin pairs from UK and Scandinavia highlights differential variance and association with active inflammation. In:  Journal of Crohn's & Colitis. Paper presented at 20th Congress of ECCO, Berlin, Germany, February 19-22, 2025. (pp. i319-i320). Oxford University Press. [BibTeX]
• Visuri, I. , Dannenberg, K. , Salomon, B. , Lundström, M. L. , Bergemalm, D. , Eriksson, C. , Lindqvist, M. , Keita, Å. V. & et al. (2025). Correlations of clinical characteristics and serum proteins with drug levels: A multicentre cohort study of patients with inflammatory bowel disease starting biologics. In:  Journal of Crohn's & Colitis. Oxford University Press. [BibTeX]
• Beaudeau, J. , Katinios, G. , Biskou, O. , Lindqvist, C. M. , Walter, S. A. , Bednarska, O. , Söderholm, J. D. , Salomon, B. & et al. (2025). Differential expression of enteric glial cell markers in inflamed and non-inflamed tissue of patients with Ulcerative Colitis during clinically active disease and remission. In:  Journal of Crohn's & Colitis. Paper presented at 20th Congress of ECCO, Berlin, Germany, February 19-22, 2025. (pp. I567-I567). Oxford University Press. [BibTeX]
• Wewer, M. D. , Lophaven, S. , Lakatos, P. L. , Gonczi, L. , Salupere, R. , Kievit, H. A. L. , Nielsen, K. R. , Midjord, J. & et al. (2025). Disease course of inflammatory bowel disease unclassified during the first ten years following diagnosis: A prospective European population-based inception cohort - the Epi-IBD cohort. In:  Journal of Crohn's & Colitis. Paper presented at 20th Congress of ECCO, Berlin, Germany, February 19-22, 2025. (pp. i2278-i2279). Oxford University Press. [BibTeX]
• Sturm, A. , Sebastian, S. , Faye, A. S. , Armuzzi, A. , Buisson, A. , Halfvarson, J. , Zeissig, S. , Kochar, B. & et al. (2025). Efficacy and safety of mirikizumab as induction and maintenance treatment in adults 60 years or older with moderately to severely active ulcerative colitis. In:  Journal of Crohn's & Colitis. Paper presented at 20th Congress of ECCO, Berlin, Germany, February 19-22, 2025. (pp. i2005-i2006). Oxford University Press. [BibTeX]
• Bergemalm, D. , Amcoff, K. , Pierik, M. J. , Colombel, J. F. , Vermeire, S. , Bodin, L. & Halfvarson, J. (2025). Environmental factors, genetic predisposition and subclinical inflammation in the development of perinuclear-antineutrophil cytoplasmic antibody (P-ANCA)-positive ulcerative colitis: A European twin study. In:  Journal of Crohn's & Colitis. Paper presented at 20th Congress of ECCO, Berlin, Germany, February 19-22, 2025. (pp. i787-i787). Oxford University Press. [BibTeX]
• Füchtbauer, J. D. , Brovkina, O. , Bang, C. , Fejrskov, A. , Aalykke, C. , Davíðsdóttir, L. , Rejler, M. , Repsilber, D. & et al. (2025). Gut mycobiome in the NORDTREAT cohort of new onset inflammatory bowel disease. In:  Journal of Crohn's & Colitis. Paper presented at 20th Congress of ECCO, Berlin, Germany, February 19-22, 2025. (pp. i2404-i2405). Oxford University Press. [BibTeX]
• Wong, S. Y. , Moran, H. R. , Rajauria, P. , Giselbrecht, E. , Wellens, J. , Vermiere, S. , Watanabe, K. , Kamikozuru, K. & et al. (2025). Trans-continental analysis of determinants of response to COVID-19 vaccination in 2268 patients with Inflammatory Bowel Disease. In:  Journal of Crohn's & Colitis. Paper presented at 20th Congress of ECCO, Berlin, Germany, February 19-22, 2025. (pp. I1369-I1371). Oxford University Press. [BibTeX]
• Karlqvist, S. , Sachs, M. , Eriksson, C. , Cao, Y. , Montgomery, S. , Ludvigsson, J. F. , Olén, O. & Halfvarson, J. (2024). Comparative risk of serious infection with vedolizumab vs anti-TNF in Inflammatory Bowel Disease: Results from nationwide Swedish registers. In:  Journal of Crohn's & Colitis. Paper presented at 19th Congress of ECCO, Stockholm, Sweden, February 21-24, 2024. (pp. I1291-I1293). Oxford University Press. [BibTeX]
• Selin, K. A. , Repsilber, D. , Strid, H. , Lindqvist, C. M. , Kruse, R. , Magnusson, M. K. , Öhman, L. , Carlson, M. & et al. (2024). Depressive symptoms in ulcerative colitis and Crohn's disease - differences in improvement at 1 year follow-up. In:  Journal of Crohn's & Colitis. Paper presented at 19th Congress of ECCO, Stockholm, Sweden, February 21-24, 2024. (pp. I1985-I1985). Oxford University Press. [BibTeX]
• Bröms, G. , Forss, A. , Eriksson, J. , Linder, M. , Eriksson, C. , Askling, J. , Halfvarson, J. , Ludvigsson, J. F. & et al. (2024). Disease characteristics at time of diagnosis of adult onset inflammatory bowel disease and the risk of venous thromboembolism in the modern era - A Swedish nationwide cohort study 2007-2021. In:  Journal of Crohn's & Colitis. Paper presented at 19th Congress of ECCO, Stockholm, Sweden, February 21-24, 2024. (pp. I1945-I1947). Oxford University Press. [BibTeX]
• Boulouis, C. , Mouchtaridi, E. , Müller, T. R. , Mak, J. Y. W. , Fairlie, D. P. , Bergman, P. , Michaëlsson, J. , Halfvarson, J. & et al. (2024). Human MAIT cell profiles biased towards IL-17 or IL-10 are transient effector states directed by the cytokine milieu. In:  European Journal of Immunology. Paper presented at 7th European Conference of Immunology, Dublin, Ireland, September 1-4, 2024. (pp. 1128-1128). John Wiley & Sons. [BibTeX]
• Nyberg, L. , Söderling, J. , Olén, O. , Strid, H. , Jäghult, S. , Halfvarson, J. , Hedin, C. , Jónsdóttir, S. & et al. (2024). Observational study of tofacitinib in ulcerative colitis in Sweden (ODEN) - Interim analysis of clinical and biomarker data. In:  Journal of Crohn's & Colitis. Paper presented at 19th Congress of ECCO, Stockholm, Sweden, February 21-24, 2024. (pp. I1703-I1704). Oxford University Press. [BibTeX]
• Nyberg, L. , Söderling, J. , Olén, O. , Strid, H. , Jäghult, S. , Halfvarson, J. , Hedin, C. , Jónsdóttir, S. & et al. (2024). Observational study of tofacitinib in Ulcerative Colitis in Sweden (ODEN) - Interim analysis of health-related quality of life and fatigue. In:  Journal of Crohn's & Colitis. Paper presented at 19th Congress of ECCO, Stockholm, Sweden, February 21-24, 2024. (pp. I1887-I1889). Oxford University Press. [BibTeX]
• Grännö, O. , Salomon, B. , Lindqvist, C. M. , Hedin, C. R. H. , Carlson, M. , Dannenberg, K. , Andersson, E. , Söderholm, J. D. & et al. (2024). Preclinical protein signatures in blood predict Crohn's disease and Ulcerative colitis several years before the diagnosis. In:  Journal of Crohn's & Colitis. Paper presented at 9th Congress of ECCO, Stockholm, Sweden, February 21-24, 2024. (pp. I660-I661). Oxford University Press. [BibTeX]
• Salomon, B. , Carlson, M. , Bergemalm, D. , Hedin, C. R. H. , Söderholm, J. D. , Keita, Å. V. , Carsten, A. , Grip, O. & et al. (2024). Prognostic potential of mucosal proteins in Ulcerative Colitis. In:  Journal of Crohn's & Colitis. Paper presented at 16th Congress of ECCO - European Crohn’s and Colitis Organisation (ECCO'21), (Virtual congress), July 2-3, 8-10, 2021. (pp. I544-I545). Oxford University Press. [BibTeX]
• Salomon, B. , Sudhakar, P. , Verstockt, B. , Ungaro, R. C. , Aden, K. , D'Haens, G. R. , Silverberg, M. S. , Repsilber, D. & et al. (2024). The serum protein profile across the IBD spectrum: Results from the COLLIBRI consortium. In:  Journal of Crohn's & Colitis. Paper presented at 16th Congress of ECCO - European Crohn’s and Colitis Organisation (ECCO'21), (Virtual congress), July 2-3, 8-10, 2021. (pp. I674-I676). Oxford University Press. [BibTeX]
• Mathisen, C. B. , Nyström, N. , Bazov, I. , Andersen, S. , Olbjørn, C. , Perminow, G. , Kristensen, V. A. , Opheim, R. & et al. (2023). A novel diagnostic serum protein signature for paediatric Inflammatory Bowel Disease: A discovery and validation study in two independent inception cohorts. In:  Journal of Crohn's & Colitis. Paper presented at 8th Congress of ECCO Copenhagen, Denmark, March 1-4, 2023. (pp. I71-I73). Oxford University Press. [BibTeX]
• Bazov, I. , Kruse, R. , Bergemalm, D. , Eriksson, C. , Hedin, C. R. , Carlson, M. , van Nieuwenhoven, M. , Keita, Å. V. & et al. (2023). A novel serum protein signature as biomarker for Inflammatory Bowel Disease: A diagnostic performance and prediction modelling study using data from two independent inception cohorts. In:  Journal of Crohn's & Colitis. Paper presented at 18th Congress of ECCO Copenhagen, Denmark, March 1-4, 2023. (pp. I314-I315). Oxford University Press. [BibTeX]
• Schreiber, S. W. , Danese, S. , Dignass, A. , Domènech, E. , Fantini, M. , Ferrante, M. , Halfvarson, J. , Hart, A. & et al. (2023). Assessing comprehensive remission for Ulcerative Colitis in clinical practice: International consensus recommendations. In:  Journal of Crohn's & Colitis. Paper presented at 18th Congress of ECCO Copenhagen, Denmark, March 1-4, 2023. (pp. I311-I312). Oxford University Press. [BibTeX]
• Wewer, M. D. , Salupere, R. , Kievit, H. A. L. , Nielsen, K. R. , Midjord, J. , Domislovic, V. , Krznarić, Ž. , Pedersen, N. & et al. (2023). Disease course of Crohn's disease during the first ten years following diagnosis in a prospective European population-based inception cohort - the Epi-IBD cohort. In:  Journal of Crohn's & Colitis. Oxford University Press. [BibTeX]
• Wewer, M. D. , Salupere, R. , Kievit, H. A. L. , Nielsen, K. R. , Midjord, J. , Domislovic, V. , Krznarić, Ž. , Pedersen, N. & et al. (2023). Disease course of Ulcerative Colitis during the first ten years following diagnosis in a prospective European population-based inception cohort - the Epi-IBD cohort. In:  Journal of Crohn's & Colitis. Paper presented at 18th Congress of ECCO, Copenhagen, Denmark, March 1-4, 2023. (pp. 994-995). Oxford University Press. [BibTeX]
• Hansen, S. H. , Maseng, M. G. , Björkqvist, O. , Halfvarson, J. , Bang, C. , Detlie, T. E. , Huppertz-Hauss, G. , Kristensen, V. & et al. (2023). Gut microbiota at diagnosis is associated with clinical features and future disease course in Inflammatory Bowel Disease: Data from IBSEN III, a new large Norwegian population-based inception cohort. In:  Journal of Crohn's & Colitis. Paper presented at 18th Congress of ECCO, Copenhagen, Denmark, March 1-4, 2023. (pp. 1028-1029). Oxford University Press. [BibTeX]
• Salihovic, S. , Nyström, N. , Mathisen, C. B. , Andersen, S. , Olbjørn, C. , Perminow, G. , Opheim, R. , Detlie, T. E. & et al. (2023). Identification and validation of a lipidomic signature as a novel diagnostic biomarker of paediatric Inflammatory Bowel Disease. In:  Journal of Crohn's & Colitis. Oxford University Press. [BibTeX]
• Sudhakar, P. , Salomon, B. , Verstockt, B. , Ungaro, R. , Aden, K. , D'Haens, G. , Komori, K. , Guay, H. & et al. (2022). Biomarkers for IBD using OLINK Proteomics inflammation panel: Preliminary results from the COLLIBRI consortium. In:  Journal of Crohn's & Colitis. Oxford University Press. [BibTeX]
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• Tamboli, C. , Attaluri, A. , Yan, J. , Duke, A. , Colombel, J. F. , Silverberg, M. , McLeod, R. , Jewell, D. & et al. (2005). Phenotypic concordance and time clustering of diagnosis in multiply affected ibd families: the IOIBD Multiplex Family Collaborative Project, phases I & II. In:  Gut. [BibTeX]
• Halfvarson, J. , Jess, T. , Jespersgaard, C. , Riis, L. , Tysk, C. , Järnerot, G. , Skytt Andersen, P. & Munkholm, P. (2005). Prevalence of Toll-like receptor 2 and 4 polymorphisms in twins with inflammatory bowel disease: a population based Danish Swedish cohort study. In:  Gut. [BibTeX]
• Jess, T. , Halfvarson, J. , Bodin, L. , Tysk, C. , Järnerot, G. & Binder, V. (2004). Concordance for Vienna Classification Characteristics in monozygotic twins with Crohn’s disease: a Danish-Swedish cohort study of IBD twins. In:  Gut. [BibTeX]
• Halfvarson, J. , Jess, T. , Bodin, L. , Tysk, C. , Binder, V. & Järnerot, G. (2004). Concordance in phenotype in ulcerative colitis: a study in monozygotic twins. In:  Gut. [BibTeX]
• Halfvarson, J. , Tysk, C. & Jarnerot, G. (2004). Decreasing pair concordance in monozygotic twins with Crohn's disease. In:  Gastroenterology. Paper presented at Digestive Disease Week/105th Annual Meeting of the American-Gastroenterological-Association, MAY 16-19, 2004, New Orleans, LA, USA. (pp. A45-A45). [BibTeX]
• Halfvarson, J. , Bresso, F. , Tysk, C. , Pettersson, S. & Jarnerot, G. (2004). Genetic Crohn's disease: A different entity than sporadic. A study in monozygotic twins. In:  Gastroenterology. Paper presented at Digestive Disease Week/105th Annual Meeting of the American-Gastroenterological-Association, MAY 16-19, 2004, New Orleans, LA, USA. (pp. A359-A360). [BibTeX]
• Halfvarson, J. , Jess, T. , Bodin, L. , Tysk, C. , Binder, V. & Jarnerot, G. (2004). Phenotypic concordance in monozygotic twin pairs with ulcerative colitis. In:  Gastroenterology. Paper presented at Digestive Disease Week/105th Annual Meeting of the American-Gastroenterological-Association, MAY 16-19, 2004, New Orleans, LA, USA. (pp. A356-A356). [BibTeX]
• Jess, T. , Halfvarson, J. , Bodin, L. , Tysk, C. , Jarnerot, G. & Binder, V. (2004). Strong genetic influence on longitudinal changes in Vienna Classification characteristics: a Danish-Swedish cohort study of IBD twins. In:  Gastroenterology. Paper presented at Digestive Disease Week/105th Annual Meeting of the American-Gastroenterological-Association, MAY 16-19, 2004, New Orleans, LA, USA. (pp. A469-A469). [BibTeX]
• Halfvarson, J. , Ahmad, T. , Daperno, M. , Jewell, D. , Järnerot, G. & Tysk, C. (2003). Inflytandet av CARD15/NOD2 samt IBD5 bland svenska tvåäggstvillingar. [BibTeX]
• Jess, T. , Halfvarson, J. , Tysk, C. , Binder, V. & Jarnerot, G. (2003). Smoking as a possible explanation for the low concordance among twins with ulcerative colitis: a population based study of environmental factors in a Danish-Swedish twin cohort. In:  Gastroenterology. Paper presented at Digestive Disease Week 2003 Meeting/104th Annual Meeting of the American-Gastroenterological-Association, MAY 17-22, 2003, ORLANDO, FLORIDA, USA. (pp. A205-A205). [BibTeX]

Manuscripts

• Grännö, O. , Bergemalm, D. , Lindqvist, C. M. , Hedin, C. R. H. , Carlson, M. , Dannenberg, K. , Andersson, E. , Strid, H. & et al. A protein signature for prediction of disease course in newly diagnosed ulcerative colitis. [BibTeX]
• Karlqvist, S. , Sachs, M. C. , Eriksson, C. , Cao, Y. , Montgomery, S. , Ludvigsson, J. F. , The SWIBREG Study Group, -. , Olén, O. & et al. Comparative risk of serious infection with vedolizumab vs anti-TNF in inflammatory bowel disease : results from nationwide Swedish registers. [BibTeX]
• Visuri, I. , Dannenberg, K. , Salomon, B. , Ling Lundström, M. , Bergemalm, D. , Eriksson, C. , Lindqvist, C. M. , Keita, Å. V. & et al. Correlations of clinical characteristics and serum proteins with drug levels : A multicentre cohort study of patients with inflammatory bowel disease starting biologics. [BibTeX]
• Amcoff, K. , Bergenmalm, D. , Pierik, M. J. , Colombel, J. , Vermeire, S. , Bodin, L. & Halfvarson, J. Environmental and genetic factors in the development of perinuclear-antineutrophil cytoplasmic antibody (pANCA) positive ulcerative colitis : a European twin study. [BibTeX]
• Carstens, A. , Björkqvist, O. , Lindqvist, C. M. , Rangel, I. , Repsilber, D. , Eriksson, C. , Bergemalm, D. , Bresso, F. & et al. Gut microbiota associated with treatment outcome to biological treatment in inflammatory bowel disease. [BibTeX]
• Grännö, O. , Thunberg, J. , Ludvigsson, J. F. , Kuja-Halkola, R. , Lindqvist, C. M. & Halfvarson, J. Heritability of Crohn’s disease and ulcerative colitis : A Swedish nationwide population-based twin study. [BibTeX]
• Fart, F. , Amcoff, K. , Bergemalm, D. , Andersson, E. , Kalla, R. , Satsangi, J. , Lindqvist, C. M. , Halfvarson, J. & et al. Loss of tolerance to microbial antigens in preclinical Crohn’s disease differs with age at diagnosis : A twin study. [BibTeX]
• Amcoff, K. , Cao, Y. , Zhulina, Y. , Lampinen, M. , Halfvarson, J. & Carlson, M. Prognostic significance of eosinophile granule proteins in inflammatory bowel disease. [BibTeX]
• Zhulina, Y. , Cao, Y. , Amcoff, K. , Carlsson, M. , Tysk, C. & Halfvarson, J. Prognostic significance of faecal calprotectin in patients with inactive inflammatory bowel disease. [BibTeX]
• Melinder, C. , Hiyoshi, A. , Kasiga, T. , Halfvarson, J. , Fall, K. & Montgomery, S. Resilience to stress and risk of gastrointestinal infections. [BibTeX]
• Gustavsson, A. , Magnuson, A. , Blomberg, B. , Andersson, M. , Halfvarson, J. & Tysk, C. Smoking is a risk factor for recurrence of intestinal stricture after endoscopic dilation in Crohn’s disease. [BibTeX]
• Grännö, O. , Lindqvist, C. M. , Bergemalm, D. , Salomon, B. , Hedin, C. , Carlson, M. , Dannenberg, K. , Strid, H. & et al. The mucosa-associated gut microbiome in newly diagnosed inflammatory bowel disease. [BibTeX]
• Shrestha, S. , Cao, Y. , Voghera, S. , Eriksson, C. , Schoultz, I. , Jess, T. , Ludvigsson, J. F. , Montgomery, S. & et al. The risk of extraintestinal manifestations before and after colectomy in patients with ulcerative colitis. [BibTeX]