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Jonas Halfvarson

Position: Professor School/office: School of Medical Sciences

Email: am9uYXMuaGFsZnZhcnNvbjtvcnUuc2U=

Phone: +46 738 082361

Room: X2212

Research subject

Medicine

Research environments

Nutrition-Gut-Brain Interactions Research Centre (NGBI)

About Jonas Halfvarson

Jonas Halfvarson is a leading expert in the field of inflammatory bowel disease (IBD). A professor of gastroenterology at Örebro University and a consultant gastroenterologist at Örebro University Hospital in Sweden, his career is marked by significant contributions to both research and clinical practice.

Research

With more than 200 publications to his name, Jonas Halfvarson’s research has significantly impacted multiple facets of IBD care. His primary research focus is on biomarkers in IBD from both clinical and mechanistic perspectives, in other words, how they can be used in healthcare and their function at a biological level.

By analysing metabolomics, proteomics, transcriptomics, genetic and microbiome data from carefully selected cohorts, or groups, and integrating these data with clinical information, Jonas Halfvarson and his research group provide insights into the biological mechanisms driving the onset and progression of the disease, including various therapies.

Findings are validated in independent cohorts, and the potential of identified biosignatures is tested in clinical trials.

Jonas Halfvarson has successfully secured funding for his work from various agencies, including the EU’s 7th Framework Programme, Horizon 2020; IMI2; the Swedish Foundation for Strategic Research; Nordforsk; Vinnova; and the Swedish Research Council.

Background

Jonas Halfvarson obtained his MD from Uppsala University, Sweden, and underwent specialist medical training in gastroenterology at Örebro University Hospital. In 2005, he defended his doctoral thesis titled ‘Inflammatory Bowel Disease in Twins; Studies of Genetics and Environmental Factors’ under the supervision of Professors Gunnar Järnerot and Curt Tysk. Part of his PhD was carried out at University of Oxford, UK, under the mentorship of Professor Derek Jewell.

In 2006, at the age of 35, he became the head of the gastroenterology unit at Örebro University Hospital, Sweden. As the clinical head, he received an award for best improvement of medical care in Sweden from the Swedish Association of Local Authorities and Regions.

In 2019, he was appointed professor of gastroenterology and is currently heading the research group on IBD and translational gastroenterology.

Teaching

Jonas Halfvarson has been involved in establishing the medical school at Örebro University and his teaching focus is on IBD and translational research.

He has further contributed to the set up of a national research school and a postdoctoral programme focusing on IBD.

Collaboration and assignments

Jonas Halfvarson has continually broken new ground in the field.

Currently, he serves as the scientific director of the Swedish National Quality Registry for IBD (SWIBREG) and leads the task force for genetics and pathophysiology at the Swedish Organisation for the Study of Inflammatory Bowel Diseases (SOIBD).

He is also part of the management committees of the International IBD Genetic Consortium (IIBDGC) and Genomics Medicine Sweden – Complex Diseases, and serves as a scientific advisor for Biobank Sweden.

From 2019 to 2023, he was leading the work for the Swedish Association of Local Authorities and Regions for establishing a national care programme for adults with IBD in Sweden and developing a national care path for patients with IBD.

From 2017 to 2023, he served on the board of the International Organization for the Study of Inflammatory Bowel Disease (IOIBD).

In 2011, he was recognised as a Rising Star in Gastroenterology during the United European Gastroenterology Week (UEGW).

Active projects

Completed projects

Microbiota

Research groups

Inflammatory bowel disease and translational gastroenterology

Publications

Articles in journals

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.
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.
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.
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.
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.
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.
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.
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).
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.
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).
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.
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).
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.
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.
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.
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.
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).
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).
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.
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.
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.
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.
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.
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.
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.
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).
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).
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.
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.
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).
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.
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.
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).
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.
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.
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.
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.
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.
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.
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.
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.
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.
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.
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.
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.
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.
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.
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.
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.
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.
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).
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.
Salomon, B. , Bergemalm, D. & Halfvarson, J. (2022). Prognostic Biosignatures at Ileocecal Resection: Hope or Reality?. Journal of Crohn's & Colitis, 16 (6), 873-875.
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.
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.
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.
Bröms, G. , Söderling, J. , Sachs, M. C. , Halfvarson, J. , Myrelid, P. , Ludvigsson, J. F. , Everhov, Å. H. & Olén, O. (2021). Capturing biologic treatment for IBD in the Swedish Prescribed Drug Register and the Swedish National Patient Register: a validation study. Scandinavian Journal of Gastroenterology, 56 (4), 410-421.
Eriksson, C. , Visuri, I. , Vigren, L. , Nilsson, L. , Kärnell, A. , Hjortswang, H. , Bergemalm, D. , Almer, S. & et al. (2021). Clinical effectiveness of golimumab in ulcerative colitis: a prospective multicentre study based on the Swedish IBD Quality Register, SWIBREG. Scandinavian Journal of Gastroenterology, 56 (11), 1304-1311.
Reinisch, W. , Gecse, K. , Halfvarson, J. , Irving, P. M. , Jahnsen, J. , Peyrin-Biroulet, L. , Rogler, G. , Schreiber, S. & et al. (2021). Clinical Practice of Adalimumab and Infliximab Biosimilar Treatment in Adult Patients With Crohn's Disease. Inflammatory Bowel Diseases, 27 (1), 106-122.
Mazzurana, L. , Bonfiglio, F. , Forkel, M. , D'Amato, M. , Halfvarson, J. & Mjösberg, J. (2021). Crohn's Disease Is Associated With Activation of Circulating Innate Lymphoid Cells. Inflammatory Bowel Diseases, 27 (7), 1128-1138.
Rundquist, S. , Sachs, M. C. , Eriksson, C. , Olén, O. , Montgomery, S. & Halfvarson, J. (2021). Drug survival of anti-TNF agents compared with vedolizumab as a second-line biological treatment in inflammatory bowel disease: results from nationwide Swedish registers. Alimentary Pharmacology and Therapeutics, 53 (4), 471-483.
Rundquist, S. , Sachs, M. C. , Eriksson, C. , Olén, O. , Montgomery, S. & Halfvarson, J. (2021). Editorial: anti-TNF agents against vedolizumab as a second-line treatment? Not surprising tie game-authors' reply. Alimentary Pharmacology and Therapeutics, 53 (5), 642-643.
Björkqvist, O. , Rangel, I. , Serrander, L. , Magnusson, C. , Halfvarson, J. , Norén, T. & Bergman-Jungeström, M. (2021). Faecalibacterium prausnitzii increases following fecal microbiota transplantation in recurrent Clostridioides difficile infection. PLOS ONE, 16 (4).
Erichsen, R. , Olén, O. , Sachs, M. C. , Pedersen, L. , Halfvarson, J. , Askling, J. , Ekbom, A. , Ludvigsson, J. F. & et al. (2021). Hepatobiliary Cancer Risk in Patients with Inflammatory Bowel Disease: A Scandinavian Population-Based Cohort Study. Cancer Epidemiology, Biomarkers and Prevention, 30 (5), 886-894.
Ludvigsson, J. F. , Axelrad, J. , Halfvarson, J. , Khalili, H. , Larsson, E. , Lochhead, P. , Roelstraete, B. , Simon, T. G. & et al. (2021). Inflammatory bowel disease and risk of severe COVID-19: A nationwide population-based cohort study in Sweden. United European Gastroenterology journal, 9 (2), 177-192.
Axelrad, J. E. , Olén, O. , Sachs, M. C. , Erichsen, R. , Pedersen, L. , Halfvarson, J. , Askling, J. , Ekbom, A. & et al. (2021). Inflammatory bowel disease and risk of small bowel cancer: a binational population-based cohort study from Denmark and Sweden. Gut, 70 (2), 297-308.
Rundquist, S. , Sachs, M. C. , Eriksson, C. , Olén, O. , Montgomery, S. & Halfvarson, J. (2021). Letter: vedolizumab or a second anti-TNF-no difference in efficacy for primary biologic failures with IBD. Authors' reply. Alimentary Pharmacology and Therapeutics, 53 (9), 1046-1047.
Fart, F. , Salihovic, S. , McGlinchey, A. J. , Gareau, M. G. , Oresic, M. , Halfvarson, J. , Hyötyläinen, T. & Schoultz, I. (2021). Perfluoroalkyl substances are increased in patients with late-onset ulcerative colitis and induce intestinal barrier defects ex vivo in murine intestinal tissue. Scandinavian Journal of Gastroenterology, 56 (11), 1286-1295.
Visuri, I. , Eriksson, C. , Olén, O. , Cao, Y. , Mårdberg, E. , Grip, O. , Gustavsson, A. , Hjortswang, H. & et al. (2021). Predictors of drug survival: A cohort study comparing anti-tumour necrosis factor agents using the Swedish inflammatory bowel disease quality register. Alimentary Pharmacology and Therapeutics, 54 (7), 931-943.
Forss, A. , Clements, M. , Myrelid, P. , Strid, H. , Söderman, C. , Wagner, A. , Andersson, D. , Hjelm, F. & et al. (2021). Prospective observational study on Stelara (ustekinumab) assessing effectiveness in Crohn's disease (PROSE): a 16-week follow-up. Scandinavian Journal of Gastroenterology, 56 (6), 680-686.
Eriksson, C. , Rundquist, S. , Lykiardopoulos, V. , Udumyan, R. , Karlén, P. , Grip, O. , Söderman, C. , Almer, S. & et al. (2021). Real-world effectiveness of vedolizumab in inflammatory bowel disease: week 52 results from the Swedish prospective multicentre SVEAH study. Therapeutic Advances in Gastroenterology, 14.
Hirten, R. P. , Lakatos, P. L. , Halfvarson, J. & Colombel, J. F. (2021). Reply. Clinical Gastroenterology and Hepatology, 19 (6), 1301-1302.
Axelrad, J. E. , Olén, O. , Sachs, M. C. , Erichsen, R. , Pedersen, L. , Halfvarson, J. , Askling, J. , Ekbom, A. & et al. (2021). Reply: Survival in Crohn's disease-associated small bowel adenocarcinoma. Gut, 70 (5), 998-998.
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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.
Halfvarson, J. (2002). Stor och tung men med bra tangentbord [Big and heavy but the keyboard is good]. Läkartidningen, 99 (13), 1478-1478.
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.
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.

Articles, reviews/surveys

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.
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.
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.
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.
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.
Ek, W. E. , D'Amato, M. & Halfvarson, J. (2014). The history of genetics in inflammatory bowel disease. Annals of Gastroenterology, 27 (4), 294-303.

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.
Halfvarson, J. (2009). Ulcerös kolit. In: Utdrag ur Medicinska mag- och tarmsjukdomar. Lund: Studentlitteratur AB.
Halfvarson, J. (2008). Ulcerös kolit. In: Henry Nyhlin, Medicinska mag- och tarmsjukdomar (pp. 371-382). Lund: Studentlitteratur.

Conference papers

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.
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.
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.
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.
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.
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.
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.
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.
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.
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.
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.
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.
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.
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.
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.
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.
Horrigan, J. , Louis, E. , Spinelli, A. , Travis, S. , Moum, B. , Salwen-Deremer, J. , Halfvarson, J. , Panaccione, R. & et al. (2022). The Real World Global Use of Patient-Reported Outcomes (PROs) for the Care of Patients With IBD. In: American Journal of Gastroenterology. Paper presented at ACG 2022, Charlotte, NC, USA, October 21-26, 2022. (pp. S704-S705). Lippincott Williams & Wilkins.
Thunberg, J. , Björkqvist, O. , Olén, O. , Ludvigsson, J. F. , Eriksson, C. & Halfvarson, J. (2021). Drug survival and remission rates in ustekinumab treated ulcerative colitis: Results from the Swedish Inflammatory Bowel Disease register (SWIBREG). 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. S317-S317). Oxford University Press.
Kalla, R. , Adams, A. , Nowak, J. , Bergemalm, D. , Vatn, S. , Ventham, N. , Kennedy, N. , Ricanek, P. & et al. (2021). EPIGENETIC ALTERATIONS IN IBD: DEFINING GEOGRAPHICAL, GENETIC, AND IMMUNEIN-FLAMMATORY INFLUENCES ON THE CIRCULATING METHYLOME. In: Gut. Paper presented at BSG 2021 Annual Meeting Online, November 8-12, 2021. (pp. A5-A5). BMJ Publishing Group Ltd.
Halfvarson, J. , Ludvigsson, J. F. , Sachs, M. , Askling, J. & Olén, O. (2020). Age determines the risk of familial IBD: A nationwide case-control study. In: Journal of Crohn's & Colitis. Oxford University Press.
Ungaro, R. , Jordan, R. , Yzet, C. , Bossuyt, P. , Baert, F. , Vanasek, T. , D'Haens, G. R. , Joustra, V. W. & et al. (2020). CDEIS score of 2 is optimal cut-off associated with lower risk of disease progression in early Crohn's disease: Data from the CALM study. In: Journal of Crohn's & Colitis. Oxford University Press.
Rundquist, S. , Sachs, M. , Eriksson, C. , Olén, O. , Montgomery, S. & Halfvarson, J. (2020). Effectiveness of anti-TNF vs. vedolizumab as a second biologic in IBD: results from national Swedish registers. In: Journal of Crohn's & Colitis. Oxford University Press.
Axelrad, J. , Olén, O. , Sachs, M. , Erichsen, R. , Pedersen, L. , Halfvarson, J. , Askling, J. , Ekbom, A. & et al. (2020). Inflammatory bowel disease and risk of small bowel cancer: A binational population-based cohort study from Denmark and Sweden. In: Journal of Crohn's & Colitis. Oxford University Press.
Fart, F. , Salihovic, S. , McGlinchey, A. J. , Oresic, M. , Halfvarson, J. , Hyötyläinen, T. & Schoultz, I. (2020). Per- and polyfluoroalkyl substances (PFAS) are significantly increased in patients with late-onset of ulcerative colitis. In: Journal of Crohn's & Colitis. Oxford University Press.
Eriksson, C. , Rundquist, S. , Lykiardopoulos, V. , Udumyan, R. , Karlén, P. , Grip, O. , Söderman, C. , Almer, S. & et al. (2020). Real-world effectiveness of vedolizumab in ulcerative colitis: Week 52 results from the Swedish multi-centre, prospective, observational SVEAH UC study. In: Journal of Crohn's & Colitis. Oxford University Press.
Olen, O. , Erichsen, R. , Sachs, M. C. , Pedersen, L. , Halfvarson, J. , Askling, J. , Ekbom, A. , Sørensen, H. T. & et al. (2020). Risk of colorectal cancer diagnosis and colorectal cancer mortality in Crohn's disease: A Scandinavian population-based cohort study. In: Journal of Crohn's & Colitis. Oxford University Press.
Visuri, I. , Eriksson, C. , Mårdberg, E. , Grip, O. , Gustavsson, A. , Hjortswang, H. , Karling, P. , Montgomery, S. & et al. (2019). Anti-TNF agent drug survival in patients with IBD: real-world comparisons of individual anti-TNF agents based on the Swedish National Quality Registry for IBD (SWIBREG). In: Journal of Crohn's & Colitis. Oxford University Press.
Burisch, J. , Vardi, H. , Schwartz, D. , Krznaric, Z. , Lakatos, P. L. , Fumery, M. , Kupcinskas, L. , Magro, F. & et al. (2019). Cost analysis in a prospective European population-based inception cohort: is there a cost-saving effect of biological therapy?. In: Journal of Crohn's & Colitis. Oxford University Press.
Yzet, C. , Ungaro, R. , Bossuyt, P. , Baert, F. , Vanasek, T. , D'Haens, G. , Joustra, V. , Panaccione, R. & et al. (2019). Endoscopic and deep remission at 1 year prevents disease progression in early Crohn's disease: long-term data from CALM. In: Journal of Crohn's & Colitis. Oxford University Press.
Bergemalm, D. , Andersson, E. , Karling, P. , Eriksson, C. , Repsilber, D. , Hultdin, J. , Halfvarson, J. & IBD Character Consortium, . (2019). Markers of systemic inflammation in preclinical ulcerative colitis. In: United European Gastroenterology journal. Sage Publications.
Juzenas, S. , Hübenthal, M. , Zeissig, S. , Strüning, N. , Keller, A. , Schulte, D. , D'Amato, M. , Lindqvist, C. M. & et al. (2019). Sequencing-based hematopoietic miRNA landscape reveals common and distinct features of autoimmune inflammatory phenotypes. In: Journal of Crohn's & Colitis. Oxford University Press.
Shubhakar, A. , Jansen, B. , Adams, A. , Reiding, K. , Ventham, N. , Bergemalm, D. , Urbanowicz, P. , Gardner, R. & et al. (2019). Serum N-glycomic biomarkers predict treatment escalation in inflammatory bowel disease. In: Journal of Crohn's & Colitis. Oxford University Press.
Rundquist, S. , Eriksson, C. , Nilsson, L. , Angelison, L. , Jäghult, S. , Björk, J. , Grip, O. , Hjortswang, H. & et al. (2018). Clinical effectiveness of golimumab in Crohn´s disease – an observational study based on the Swedish National Quality Registry for Inflammatory Bowel Disease (SWIBREG). Paper presented at 26th United European Gastroenterology Week, Vienna, Austria, October 20-24, 2018.
Eriksson, C. , Bergemalm, D. , Vigren, L. , Nilsson, L. , Visuri, I. , Hjortswang, H. , Udumyan, R. , Almer, S. & et al. (2018). Clinical effectiveness of golimumab: Interim analysis of the observational study of patients with ulcerative colitis on golimumab in the Swedish National Quality Registry for IBD-GO-SWIBREG. In: Journal of Crohn's & Colitis. Paper presented at 13th Congress of ECCO – European Crohn’s and Colitis Organisation, Vienna, Austria, February 14-17, 2018. (pp. S409-S410). Oxford University Press.
Eriksson, C. , Rundquist, S. , Lykiardopoulos, V. , Karlen, P. , Grip, O. , Söderman, C. , Almer, S. , Hertervig, E. & et al. (2018). Clinical effectiveness of vedolizumab: Interim analysis of the Swedish observational study on vedolizumab assessing effectiveness and healthcare resource utilisation in patients with Crohn's disease (SVEAH CD). In: Journal of Crohn's & Colitis. Oxford University Press.
Eriksson, C. , Rundquist, S. , Lykiardopoulos, V. , Karlen, P. , Grip, O. , Söderman, C. , Almer, S. , Hertervig, E. & et al. (2018). Clinical effectiveness of vedolizumab: Interim analysis of the Swedish observational study on vedolizumab assessing effectiveness and healthcare resource utilisation in patients with ulcerative colitis (SVEAH UC). In: Journal of Crohn's & Colitis. Oxford University Press.
Vatn, S. , Karlsson, M. C. , Carstens, A. , Detlie, T. E. , Ricanek, P. , Bergemalm, D. , Lindquist, C. M. , Jahnsen, J. & et al. (2018). Faecal microbiota in newly diagnosed Crohn's disease and its relation to treatment escalation. In: Journal of Crohn's & Colitis. Oxford University Press.
Vatn, S. , Karlsson, M. C. , Carstens, A. , Detlie, T. E. , Ricanek, P. , Lindquist, C. M. , Bergemalm, D. , Jahnsen, J. & et al. (2018). Faecal microbiota in treatment-naive ulcerative colitis and its relation to treatment escalation. In: Journal of Crohn's & Colitis. Oxford University Press.
Eriksson, C. , Bergenmalm, D. , Vigren, L. , Nilsson, L. , Visuri, I. , Hjortswang, H. , Udumyan, R. , Almer, S. & et al. (2018). Golimumab är effektivt vid ulcerös kolit under svenska förhållanden. Interimsanalys av en svensk prospektiv multi-centerstudie, GO-SWIBREG. Paper presented at Gastrodagarna 2018, Falun, Sweden, 16-18 maj, 2018.
Keita, A. V. , Lindqvist, C. M. , Ost, A. , Magana, C. D. L. , Schoultz, I. & Halfvarson, J. (2018). Gut barrier dysfunction: a primary defect in twins with Crohn's disease predominantly caused by genetic predisposition. In: Journal of Crohn's & Colitis. Oxford University Press.
Burisch, J. , Andersen, V. , Cukovic-Cavka, S. , Lakatos, P. L. , D'Inca, R. , Magro, F. , Arebi, N. , Kievit, L. & et al. (2018). Immunomodulators reduce the risk of surgery and hospitalisation in Crohn's disease in a prospective European population-based inception cohort: the Epi-IBD cohort. In: Journal of Crohn's & Colitis. Oxford University Press.
Björkqvist, O. , Repsilber, D. , Seifert, M. , Engstrand, L. , Rangel, I. & Halfvarson, J. (2018). Increasing abundance of faecalibacterium prausnitzii is associated with decreased intestinal inflammation in Crohn's disease: A longitudinal study. In: Journal of Crohn's & Colitis. Oxford University Press.
Burisch, J. , Ellul, P. , Arebi, N. , Kaimakliotis, I. , D'Inca, R. , Andersen, V. , Belousova, E. , Hernandez, V. & et al. (2018). Natural disease course of inflammatory bowel disease unclassified in a prospective European population-based inception cohort-the Epi-IBD cohort. In: Journal of Crohn's & Colitis. Oxford University Press.
Amcoff, K. , Cao, Y. , Zhulina, Y. , Lampinen, M. , Halfvarson, J. & Carlson, M. (2018). Prognostic significance of eosinophil granule proteins in inflammatory bowel disease. In: Journal of Crohn's & Colitis. Oxford University Press.
Eriksson, C. , Rundquist, S. , Cao, Y. , Montgomery, S. & Halfvarson, J. (2018). The impact of thiopurine drugs on the natural history and surgical outcome of ulcerative colitis: A cohort study. In: Journal of Crohn's & Colitis. Oxford University Press.
Kalla, R. , Adams, A. T. , Vatn, S. , Bonfiglio, F. , Nimmo, E. R. , Kennedy, N. A. , Ventham, N. , Vatn, M. H. & et al. (2017). Epigenetic alterations at diagnosis predict susceptibility, prognosis and treatment escalation in inflammatory bowel disease – ibd character. In: Gut. Paper presented at Annual General Meeting of the British-Society-of-Gastroenterology (BSG), Manchester, England, June 19-22, 2017. (pp. A24-A25). BMJ Publishing Group Ltd.
Kalla, R. , Adams, A. T. , Vatn, S. , Bergemalm, D. , Ricanek, P. , Lindstrom, J. C. , Ocklind, A. , Nordberg, N. & et al. (2017). Proximity extension assay based proteins show immune cell specificity and can diagnose and predict outcomes in inflammatory bowel diseases: ibd character study. In: Gut. Paper presented at Annual General Meeting of the British-Society-of-Gastroenterology (BSG), Manchester, England, June 19-22, 2017,. (pp. A202-A203). BMJ Publishing Group Ltd.
Burisch, J. , Gerdes, U. , Almer, S. , Cukovic-Cavka, S. , Sebastian, S. , Kaimakliotis, I. , Duricova, D. , Pedersen, N. & et al. (2016). Frequency of anaemia and anaemia subtypes in east-west European inception cohort: an ECCO-EpiCom cohort study. In: Journal of Crohn's & Colitis. Oxford University Press.
Andersson, E. , Bergemalm, D. , Kruse, R. , D'Amato, M. , Repsilber, D. & Halfvarson, J. (2016). Inflammatory biomarkers in serum discriminate Crohn's disease and ulcerative colitis from healthy controls. In: Journal of Crohn's & Colitis. Oxford University Press.
Siegel, C. , Whitman, C. , Spiegel, B. , Feagan, B. , Sands, B. , Loftus, E. , Panaccione, R. , D'Haens, G. & et al. (2016). Looking beyond symptoms and disease activity to define disease severity in inflammatory bowel disease: results of an IOIBD specialist panel. In: Journal of Crohn's & Colitis. Oxford University Press.
Zhulina, Y. , Cao, Y. , Amcoff, K. , Carlson, M. , Tysk, C. & Halfvarson, J. (2016). Prognostic significance of serial faecal calprotectin in inflammatory bowel disease. In: Journal of Crohn's & Colitis. Oxford University Press.
Kalla, R. , Ocklind, A. , Petren, C. , Nordberg, N. , Kennedy, N. , Ventham, N. , Pettersson, E. , Bergemalm, D. & et al. (2016). Proximity extension assay immunoassay technology identifies novel serum biomarkers that can diagnose and classify inflammatory bowel diseases: IBD Character Consortium. In: Journal of Crohn's & Colitis. Oxford University Press.
Keser, T. , Akmacic, I. T. , Ventham, N. T. , Theodoratou, E. , Vuckovic, F. , Kennedy, N. A. , Nimmo, E. R. , Kalla, R. & et al. (2015). Changes in the immunoglobulin G glycome associated with inflammatory bowel disease. In: Glycobiology. Paper presented at Annual Meeting of the Society for Glycobiology on Glycobiology - Accelerating Impact across the Biomedical Sciences, San Francisco, CA, USA, December 1-4, 2015. (pp. 1242-1242). Oxford University Press.
Kalla, R. , Kennedy, N. , Hjelm, F. , Modig, E. , Sundell, M. , Andreassen, B. , Bergemalm, D. , Ricanek, P. & et al. (2015). Proximity Extension Assay technology identifies novel serum biomarkers for predicting Inflammatory Bowel Disease: IBD Character Consortium. In: Journal of Crohn's & Colitis. Oxford University Press.
Melinder, C. , Hiyoshi, A. , Halfvarson, J. & Montgomery, S. (2015). Stress resilience in adolescence and subsequent inflammatory bowel disease risk in adulthood. In: Psychoneuroendocrinology. Paper presented at 45th Annual Meeting of the International-Society-of-Psychoneuroendocrinology (ISPNE) on Stress and the Brain - From Fertility to Senility, Edinburgh, Scotland, September 8-11, 2015. (pp. 27-27).
Burisch, J. , Kaimakliotis, I. , Duricova, D. , Kievit, L. , Dahlerup, J. F. , Salupere, R. , Nielsen, K. R. , Manninen, P. & et al. (2015). Unchanged surgery and hospitalization rates in an East-West European inception cohort despite differences in use of biologicals-3-year follow-up of the ECCO-EpiCom cohort. In: Journal of Crohn's & Colitis.
Burisch, J. , Kaimakliotis, I. , Duricova, D. , Thorsgaard, N. , Andersen, V. , Nielsen, K. R. , Tsianos, E. V. , Ladefoged, K. & et al. (2014). The cost of investigations and medical treatment including biological therapy in a European inception cohort from the biological era: An ECCO-EpiCom study. In: Journal of Crohn's & Colitis. Oxford, United Kingdom: Oxford University Press.
Burisch, J. , Pedersen, N. , Cukovic-Cavka, S. , Kaimakliotis, J. , Duricova, D. , Shonova, O. , Vind, I. , Thorsgaard, N. & et al. (2014). The Cost of Medical Management, Surgery and Clinical Investigations in a European Population-Based Inception Cohort From the Biological Era: An ECCO-Epicom Study. In: Gastroenterology. Saunders Elsevier.
Radford-Smith, G. , Doecke, J. D. , Lees, C. W. , McGovern, D. P. , Vermeire, S. , Kupcinskas, L. , Gearry, R. B. , Hov, J. R. & et al. (2013). Clinical and molecular characterization of medically refractory acute, severe colitis: preliminary results from the international inflammatory bowel disease genetics consortium (IIBDGC) immunochip study. In: Gastroenterology. Paper presented at Digestive Disease Week, MAY 18-21, 2013, Orlando, FL, USA. (pp. S470-S470).
Zhulina, Y. , Hahn Strömberg, V. , Shamikh, A. , Gustavsson, A. , Bohr, J. , Nyhlin, N. , Wickbom, A. , Bodin, L. & et al. (2012). Aktiverad NFkB i colonbiopsier hos tvillingar med inflammatorisk tarmsjukdom. In: Gastrokuriren. Svensk Gastroenterologisk Förening.
Amcoff, K. , Joossens, M. , Pierik, M. J. , Jonkers, D. , Bohr, J. , Joossens, S. , Romberg-Camp, M. , Nyhlin, N. & et al. (2012). Arvets inverkan på serologiska markörer hos tvillingar med IBD. In: Gastrokuriren. Svensk Gastroenterologisk Förening.
Wouters, M. M. , Lambrechts, D. , Cleynen, I. , Whorwell, P. J. , Lambaerts, K. , Agreus, L. , Dlugosz, A. , Schmidt, P. T. & et al. (2012). Association of protective IL13 polymorphism with irritable bowel syndrome. In: Gastroenterology. Paper presented at Digestive Disease Week (DDW), MAY 19-22, 2012, San Diego, CA, USA. (pp. S178-S178).
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Manuscripts

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.
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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.
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.
Amcoff, K. , Cao, Y. , Zhulina, Y. , Lampinen, M. , Halfvarson, J. & Carlson, M. Prognostic significance of eosinophile granule proteins in inflammatory bowel disease.
Zhulina, Y. , Cao, Y. , Amcoff, K. , Carlsson, M. , Tysk, C. & Halfvarson, J. Prognostic significance of faecal calprotectin in patients with inactive inflammatory bowel disease.
Melinder, C. , Hiyoshi, A. , Kasiga, T. , Halfvarson, J. , Fall, K. & Montgomery, S. Resilience to stress and risk of gastrointestinal infections.
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.