Dirk Repsilber
Dirk Repsilber Position: Professor School/office: School of Medical SciencesEmail: ZGlyay5yZXBzaWxiZXI7b3J1LnNl
Phone: +46 19 301256
Room: X2218
- The Life Science Centre
- Nutrition-Gut-Brain Interactions Research Centre (NGBI)
-
Responsive Nutrition Research Centre
About Dirk Repsilber
As professor in Functional Bioinformatics my mission is to run both research and teaching activity in Functional Bioinformatics, as truly integrated multi-disciplinary venture at Örebro University. As of 2017, we are involved in projects of medical, biomedical, biological and chemical research, as well as in methods development regarding the core bioinformatics field.
Personal development
I started to get interested in genetic regulatory networks' architecture and function as part of my PhD thesis which I finished in 1999 at the University of Hamburg, Germany. In the year 2000 I started as PostDoc both at Uppsala University, Department of Molecular Evolution, and at SLU, Uppsala, Institute for Biometry and Statistics. Working on reverse engineering of genetic networks I came in touch with the first microarray gene expression studies and began to develop towards functional bioinformatics. Back in Germany, in 2003, at the Institute for Medical Statistics and Biometry of the University at Lübeck, I became involved in analyzing molecular profiles as part of clinical studies, as well as in biostatistics counseling. Later, at the Chair of Bioinformatics of the Institute for Biochemistry and Biology, University of Potsdam, multivariate statistical analysis approaches and statistical learning were in focus and how these methods could be further developed towards allowing integrative analyses (profile and phenome data from different sources). In 2007, I started as head of a working group for Biomathematics and Bioinformatics at the Leibniz Institute for Farm Animal Biology, FBN-Dummerstorf. Analysis of pooled profile data, as well as profile data from heterogeneous tissues was in focus of my methodological work for several years, extended by statistical modeling of random effects, to analyze genome-wide SNP-data in animal populations of known kinship structure. Now – being back to functional bioinformatics for medical research, my vision is to offer research both for integrative bioinformatics data analysis as well as for methods development, teaching at all levels with a truly cross-disciplinary approach, as well as cross-disciplinary supervision on Master, PhD, and PostDoc levels.
Research Interests
Biosignature screening on both data analysis level and methods developing level is my core interest. Cooperations with clinical medicine and biomedicine define the basis in terms of specific problems and datasets, while together with biostatisticians and biomathematicians I am interested in building and extending methods capable to use functional network a priori knowledge, and, vice versa, to use biosignature candidate results to learn more about regulatory structures of the underlying biomedical system. The link between molecular features as good biosignature building blocks and their mechanistical, functional relation to the clinical phenomenon is not a simple one-to-one mapping. Both different levels of biological organisation and network structures on the diverse molecular levels play decisive roles. The art of tailor-made modeling together with data handling, interpretation of results, and related biostatistical consultation is my profession.
These research objectives imply a strong cross-disciplinary commitment, and I feel dedicated to combine approaches and work tightly together with researchers from the fields of medicine and molecular biology, statistics, computer science, physics and mathematics, all feeding into rewarding developments for functional bioinformatics investigations. Taking the integrative, functional bioinformatics perspective, it has always been the systems scale which was my main field of interest and scientific work: elucidating structure and function of the genotype-phenotype map, in health and disease.
Education and supervision
The nature of my research focus involves special needs for cross-disciplinary communication skills, to understand and be understood by molecular biologists, medical doctors, geneticists, computer scientists, mathematicians, statisticians and theoretical physicists. My experiences include teaching among others medical doctors, biologists, and computer scientists, also frequently together in interdisciplinary courses, both at all academic levels and outside universities. The experiences from a wide variety of courses, are complemented with my experiences as supervisor for several PhD students who were originally educated in different fields. In addition, I was able to educate my communication qualities as leader of junior research groups, and later as Head of Unit for Biomathematics and Bioinformatics, as well as managing the collaborations with senior scientists both within my group, within Germany and Sweden, and within my international network of research co-operations. I take a problem-based teaching approach in functional bioinformatics which in my experience has proven to be eligible to achieve a motivation basis for deep learning, especially in courses with students from different scientific fields, fostering trans-disciplinary understanding and communication. I established a Statistical Bioinformatics Counseling activity as an infrastructure for knowledge transfer as well as for establishing future co-operations, within Örebro University and outside.
Research projects
Active projects
- BIO IBD - A multi-modal national study to identify BIOmarkers for diagnosis, therapy response and disease progression in IBD
- Biosignatures and functional network structures
- Interleukin-6 as a therapeutic target for atherosclerosis
- Cell Painting: a novel tool in toxicology (CPTox)
- Comparing the efficacy of encapsulated and non-encapsulated probiotics to affect brain function
- Compositional analysis of the human gut microbiota along the entire large intestine
- Hur påverkar fibrer mag- och tarmbarriären hos äldre personer
- Effect of serotonergic stimulation on the gut-brain axis in irritable bowel syndrome patients compared with healthy subjects applying functional brain imaging
- Hybrid mechanistic/statistical predictive models for precision medicine
- Inflammation and lipids in vascular disease
- Butyrate-promoting dietary fibres as a potential strategy for the prevention of type-2 diabetes
- Age-associated gastrointestinal symptoms
- Metabolomics signatures in medical and environmental pattern studies
- MicroSens - Improving the sense of taste by altering oral microbiota
- Mixture-Risk
- NanoSafety2
- Network medicine and systems biological approaches to modeling inflammation
- NORDTREAT
- PAC-Risk
- PAN Prodig - True Ileal Digestibility of Different Plant-Based Proteins in a Human Ileostomy Model
- PAN Promet - The Effect of Oral Ingestion of Animal and Plant-Based Proteins on the Somatotropic Axis
- PFAS-Risk
- Proteome signatures in IBD
- Regulation and early signs of immunosuppression in sepsis
- Inflammation and fibrosis- what are the mechanisms ?
- Systematic modelling: quantitative and semi-qualitative implementations of nutrition-microbe-gut-blood-brain interactions regarding the role of butyrate
- X-HiDE
Completed projects
- Dietary Fibers supporting Gut and Immune Function - from polysaccharide compound to health claim (FibeBiotics)
- Efficacy of dietary supplementation with Lactobacilllus reuteri for digestive health in an elderly population (ELROY)
- Faecal microbial transplantation (FMT) in IBS
- Functional profiling of microbiota in the human gut
- Identifying mechanisms for development of novel therapeutic strategies to treat age-associated constipation and diarrhoea (FODI)
- Integrative bioinformatics: combining clinical, physiological, brain imaging and molecular profiles
- Microbiota cross-talk in host cell interactions
- Microbe-host interactions in post-infectious irritable bowel syndrome (PI-IBS)
- Psycho(bio)logical effects of a probiotic mixture - an fMRI study
- Development of a comprehensive elderly cohort
- Development of an in vivo butyrate sensor
Research groups
Publications
Articles in journals
- Roca Rubio, M. F. , Folkesson, M. , Kremp, C. , Evertsson, N. , Repsilber, D. , Eriksson, U. , Ganda Mall, J. P. , Kadi, F. & et al. (2024). Associations between various markers of intestinal barrier and immune function after a high-intensity exercise challenge. Physiological Reports, 12 (10). [BibTeX]
- Zhang, X. , Li, M. , Ye, S. , Shen, K. , Yuan, H. , Bakhtyar, S. , Peng, Q. , Liu, Y. & et al. (2024). CBD2: A functional biomarker database for colorectal cancer. iMeta, 3 (1). [BibTeX]
- Salomon, B. , Sudhakar, P. , Bergemalm, D. , Andersson, E. , Grännö, O. , Carlson, M. , Hedin, C. R. H. , Söderholm, J. D. & et al. (2024). Characterisation of IBD heterogeneity using serum proteomics: A multicentre study. Journal of Crohn's & Colitis. [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]
- Rode, J. , Brengesjö Johnson, L. , König, J. , Rangel, I. , Engstrand, L. , Repsilber, D. & Brummer, R. J. (2024). Fecal samples and rectal swabs adequately reflect the human colonic luminal microbiota. Gut microbes, 16 (1). [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]
- 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]
- Zhao, X. , Dannenberg, K. , Repsilber, D. , Gerdle, B. , Molander, P. & Hesser, H. (2024). Prognostic subgroups of chronic pain patients using latent variable mixture modeling within a supervised machine learning framework. Scientific Reports, 14 (1). [BibTeX]
- Alijagic, A. , Scherbak, N. , Kotlyar, O. , Karlsson, P. , Wang, X. , Odnevall, I. , Benada, O. , Amiryousefi, A. & et al. (2023). A Novel Nanosafety Approach Using Cell Painting, Metabolomics, and Lipidomics Captures the Cellular and Molecular Phenotypes Induced by the Unintentionally Formed Metal-Based (Nano)Particles. Cells, 12 (2). [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]
- Nikaein, N. , Tuerxun, K. , Cedersund, G. , Eklund, D. , Kruse, R. , Särndahl, E. , Nånberg, E. , Thonig, A. & et al. (2023). Mathematical models disentangle the role of IL-10 feedbacks in human monocytes upon proinflammatory activation. Journal of Biological Chemistry, 299 (10). [BibTeX]
- Bachmann, R. , Van Hul, M. , Baldin, P. , Léonard, D. , Delzenne, N. M. , Belzer, C. , Ouwerkerk, J. P. , Repsilber, D. & et al. (2022). Akkermansia muciniphila Reduces Peritonitis and Improves Intestinal Tissue Wound Healing after a Colonic Transmural Defect by a MyD88-Dependent Mechanism. Cells, 11 (17). [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]
- Fioretos, T. , Wirta, V. , Cavelier, L. , Berglund, E. , Friedman, M. , Akhras, M. , Botling, J. , Ehrencrona, H. & et al. (2022). Implementing precision medicine in a regionally organized healthcare system in Sweden. Nature Medicine, 28 (10), 1980-1982. [BibTeX]
- Edebol Carlman, H. M. T. , Rode, J. , König, J. , Repsilber, D. , Hutchinson, A. , Thunberg, P. , Persson, J. , Kiselev, A. & et al. (2022). Probiotic Mixture Containing Lactobacillus helveticus, Bifidobacterium longum and Lactiplantibacillus plantarum Affects Brain Responses to an Arithmetic Stress Task in Healthy Subjects: A Randomised Clinical Trial and Proof-of-Concept Study. Nutrients, 14 (7). [BibTeX]
- Rode, J. , Edebol Carlman, H. M. T. , König, J. , Repsilber, D. , Hutchinson, A. , Thunberg, P. , Andersson, P. , Persson, J. & et al. (2022). Probiotic Mixture Containing Lactobacillus helveticus, Bifidobacterium longum and Lactiplantibacillus plantarum Affects Brain Responses Toward an Emotional Task in Healthy Subjects: A Randomized Clinical Trial. Frontiers in nutrition, 9. [BibTeX]
- Holster, S. , Repsilber, D. , Geng, D. , Hyötyläinen, T. , Salonen, A. , Lindqvist, C. M. , Rajan, S. K. , de Vos, W. M. & et al. (2021). Correlations between microbiota and metabolites after faecal microbiota transfer in irritable bowel syndrome. Beneficial Microbes, 12 (1), 17-30. [BibTeX]
- Zegeye, M. M. , Andersson, J. S. O. , Wennberg, P. , Repsilber, D. , Sirsjö, A. & Ljungberg, L. (2021). IL-6 as a Mediator of the Association Between Traditional Risk Factors and Future Myocardial Infarction: A Nested Case-Control Study. Arteriosclerosis, Thrombosis and Vascular Biology, 41 (4), 1570-1579. [BibTeX]
- Engelheart, S. , Andrén, D. , Repsilber, D. , Bertéus Forslund, H. & Brummer, R. J. (2021). Nutritional status in older people: An explorative analysis. Clinical Nutrition ESPEN, 46, 424-433. [BibTeX]
- Kalla, R. , Adams, A. T. , Bergemalm, D. , Vatn, S. , Kennedy, N. A. , Ricanek, P. , Lindstrom, J. , Ocklind, A. & et al. (2021). Serum proteomic profiling at diagnosis predicts clinical course, and need for intensification of treatment in inflammatory bowel disease. Journal of Crohn's & Colitis, 15 (5), 699-708. [BibTeX]
- Bergemalm, D. , Andersson, E. , Hultdin, J. , Eriksson, C. , Rush, S. T. , Kalla, R. , Adams, A. T. , Keita, Å. V. & et al. (2021). Systemic Inflammation in Preclinical Ulcerative Colitis. Gastroenterology, 161 (5), 1526-1539.e9. [BibTeX]
- Fart, F. , Rajan, S. K. , Wall, R. , Rangel, I. , Ganda Mall, J. P. , Tingö, L. , Brummer, R. J. , Repsilber, D. & et al. (2020). Differences in Gut Microbiome Composition between Senior Orienteering Athletes and Community-Dwelling Older Adults. Nutrients, 12 (9). [BibTeX]
- Ljungberg, L. , Zegeye, M. M. , Kardeby, C. , Fälker, K. , Repsilber, D. & Sirsjö, A. (2020). Global Transcriptional Profiling Reveals Novel Autocrine Functions of Interleukin 6 in Human Vascular Endothelial Cells. Mediators of Inflammation, 2020. [BibTeX]
- Chavan, S. , Scherbak, N. , Engwall, M. & Repsilber, D. (2020). Predicting Chemical-Induced Liver Toxicity Using High-Content Imaging Phenotypes and Chemical Descriptors: A Random Forest Approach. Chemical Research in Toxicology, 33 (9), 2261-2275. [BibTeX]
- Serhan, C. N. , Gupta, S. K. , Perretti, M. , Godson, C. , Brennan, E. , Li, Y. , Soehnlein, O. , Shimizu, T. & et al. (2020). The Atlas of Inflammation Resolution (AIR). Molecular Aspects of Medicine, 74. [BibTeX]
- Krishna, S. , Kiselev, A. , Kristoffersson, A. , Repsilber, D. & Loutfi, A. (2019). A Novel Method for Estimating Distances from a Robot to Humans Using Egocentric RGB Camera. Sensors, 19 (14). [BibTeX]
- Holster, S. , Hooiveld, G. J. , Repsilber, D. , de Vos, W. , Brummer, R. J. & König, J. (2019). Allogenic Faecal Microbiota Transfer Induces Immune-Related Gene Sets in the Colon Mucosa of Patients with Irritable Bowel Syndrome. Biomolecules, 9 (10). [BibTeX]
- Rajan, S. K. , Lindqvist, C. M. , Brummer, R. J. , Schoultz, I. & Repsilber, D. (2019). Phylogenetic microbiota profiling in fecal samples depends on combination of sequencing depth and choice of NGS analysis method. PLOS ONE, 14 (9). [BibTeX]
- Djekic, D. , Pinto, R. , Repsilber, D. , Hyötyläinen, T. & Henein, M. (2019). Serum untargeted lipidomic profiling reveals dysfunction of phospholipid metabolism in subclinical coronary artery disease. Vascular Health and Risk Management, 15, 123-135. [BibTeX]
- Drobin, K. , Assadi, G. , Hong, M. , Andersson, E. , Fredolini, C. , Forsström, B. , Reznichenko, A. , Akhter, T. & et al. (2019). Targeted Analysis of Serum Proteins Encoded at Known Inflammatory Bowel Disease Risk Loci. Inflammatory Bowel Diseases, 25 (2), 306-316. [BibTeX]
- Holster, S. , Lindqvist, C. M. , Repsilber, D. , Salonen, A. , de Vos, W. , König, J. & Brummer, R. J. (2019). The Effect of Allogenic Versus Autologous Fecal Microbiota Transfer on Symptoms, Visceral Perception and Fecal and Mucosal Microbiota in Irritable Bowel Syndrome: A Randomized Controlled Study. Clinical and Translational Gastroenterology, 10 (4). [BibTeX]
- Ganda Mall, J. , Östlund-Lagerström, L. , Lindqvist, C. M. , Algilani, S. , Rasoal, D. , Repsilber, D. , Brummer, R. J. , V. Keita, Å. & et al. (2018). Are self-reported gastrointestinal symptoms among older adults associated with increased intestinal permeability and psychological distress?. BMC Geriatrics, 18 (1). [BibTeX]
- Rush, S. & Repsilber, D. (2018). Capturing context-specific regulation in molecular interaction networks. BMC Bioinformatics, 19 (1). [BibTeX]
- Neumann, G. , Wall, R. , Rangel, I. , Marques, T. M. & Repsilber, D. (2018). Qualitative modelling of the interplay of inflammatory status and butyrate in the human gut: a hypotheses about robust bi-stability. BMC Systems Biology, 12 (1). [BibTeX]
- Edebol-Carlman, H. , Ljotsson, B. , Linton, S. J. , Boersma, K. , Schrooten, M. , Repsilber, D. & Brummer, R. J. (2017). Face-to-Face Cognitive-Behavioral Therapy for Irritable Bowel Syndrome: The Effects on Gastrointestinal and Psychiatric Symptoms. Gastroenterology Research and Practice. [BibTeX]
- Gunaltay, S. , Repsilber, D. , Helenius, G. , Nyhlin, N. , Bohr, J. , Hultgren, O. & Hultgren Hörnquist, E. (2017). Oligoclonal T-cell Receptor Repertoire in Colonic Biopsies of Patients with Microscopic Colitis and Ulcerative Colitis. Inflammatory Bowel Diseases, 23 (6), 932-945. [BibTeX]
- Andersson, E. , Bergemalm, D. , Kruse, R. , Neumann, G. , D'Amato, M. , Repsilber, D. & Halfvarson, J. (2017). Subphenotypes of inflammatory bowel disease are characterized by specific serum protein profiles. PLOS ONE, 12 (10). [BibTeX]
- Koskela von Sydow, A. , Janbaz, C. , Kardeby, C. , Repsilber, D. & Ivarsson, M. (2016). IL-1α Counteract TGF-β Regulated Genes and Pathways in Human Fibroblasts. Journal of Cellular Biochemistry, 117 (7), 1622-1632. [BibTeX]
- Östlund-Lagerström, L. , Kihlgren, A. , Repsilber, D. , Björkstén, B. , Brummer, R. J. & Schoultz, I. (2016). Probiotic administration among free-living older adults: a double blinded, randomized, placebo-controlled clinical trial. Nutrition Journal, 15. [BibTeX]
- Sundin, J. , Rangel, I. , Repsilber, D. & Brummer, R. (2015). Cytokine Response after Stimulation with Key Commensal Bacteria Differ in Post-Infectious Irritable Bowel Syndrome (PI-IBS) Patients Compared to Healthy Controls. PLOS ONE, 10 (9). [BibTeX]
- Zebunke, M. , Repsilber, D. , Nuernberg, G. , Wittenburg, D. & Puppe, B. (2015). The backtest in pigs revisited: an analysis of intra-situational behaviour. Applied Animal Behaviour Science, 169, 17-25. [BibTeX]
- Rangel, I. , Sundin, J. , Fuentes, S. , Repsilber, D. , de Vos, W. M. & Brummer, R. J. (2015). The relationship between faecal-associated and mucosal-associated microbiota in irritable bowel syndrome patients and healthy subjects. Alimentary Pharmacology and Therapeutics, 42 (10), 1211-1221. [BibTeX]
- Telaar, A. , Liland, K. H. , Repsilber, D. & Nürnberg, G. (2013). An extension of PPLS-DA for classification and comparison to ordinary PLS-DA. PLOS ONE, 8 (2). [BibTeX]
- Telaar, A. , Repsilber, D. & Nürnberg, G. (2013). Biomarker discovery: classification using pooled samples. Computational statistics (Zeitschrift), 28 (1), 67-106. [BibTeX]
- Graunke, K. L. , Nürnberg, G. , Repsilber, D. , Puppe, B. & Langbein, J. (2013). Describing temperament in an ungulate: a multidimensional approach. PLOS ONE, 8 (9). [BibTeX]
- Singh, N. K. , Repsilber, D. , Liebscher, V. , Taher, L. & Fuellen, G. (2013). Identifying genes relevant to specific biological conditions in time course microarray experiments. PLOS ONE, 8 (10). [BibTeX]
- Melzer, N. , Wittenburg, D. & Repsilber, D. (2013). Integrating milk metabolite profile information for the prediction of traditional milk traits based on SNP information for Holstein cows. PLOS ONE, 8 (8). [BibTeX]
- Melzer, N. , Wittenburg, D. & Repsilber, D. (2013). Investigating a complex genotype-phenotype map for the development of methods to predict genetic values based on genome-wide marker data – a simulation study for the livestock perspective. Archiv für Tierzucht, 56 (38), 380-398. [BibTeX]
- Melzer, N. , Wittenburg, D. , Hartwig, S. , Jakubowski, S. , Kesting, U. , Willmitzer, L. , Lisec, J. , Reinsch, N. & et al. (2013). Investigating associations between milk metabolite profiles and milk traits of Holstein cows. Journal of Dairy Science, 96 (3), 1521-34. [BibTeX]
- Wittenburg, D. , Melzer, N. , Willmitzer, L. , Lisec, J. , Kesting, U. , Reinsch, N. & Repsilber, D. (2013). Milk metabolites and their genetic variability. Journal of Dairy Science, 96 (4), 2557-69. [BibTeX]
- Vogel, K. U. , Edelmann, S. L. , Jeltsch, K. M. , Bertossi, A. , Heger, K. , Heinz, G. A. , Zöller, J. , Warth, S. C. & et al. (2013). Roquin paralogs 1 and 2 redundantly repress the Icos and Ox40 costimulator mRNAs and control follicular helper T cell differentiation. Immunity, 38 (4), 655-68. [BibTeX]
- Weiner, J. , Parida, S. K. , Maertzdorf, J. , Black, G. F. , Repsilber, D. , Telaar, A. , Mohney, R. P. , Arndt-Sullivan, C. & et al. (2012). Biomarkers of inflammation, immunosuppression and stress with active disease are revealed by metabolomic profiling of tuberculosis patients. PLOS ONE, 7 (7), e40221. [BibTeX]
- Meyer, R. C. , Witucka-Wall, H. , Becher, M. , Blacha, A. , Boudichevskaia, A. , Dörmann, P. , Fiehn, O. , Friedel, S. & et al. (2012). Heterosis manifestation during early Arabidopsis seedling development is characterized by intermediate gene expression and enhanced metabolic activity in the hybrids. The Plant Journal, 71 (4), 669-83. [BibTeX]
- Andorf, S. , Meyer, R. C. , Selbig, J. , Altmann, T. & Repsilber, D. (2012). Integration of a systems biological network analysis and QTL results for biomass heterosis in Arabidopsis thaliana. PLOS ONE, 7 (11). [BibTeX]
- Graunke, K. L. , Langbein, J. , Repsilber, D. & Schön, P. C. (2012). Objectively measuring behaviour traits in an automated restraint-test for ungulates: towards making temperament measurable. Journal of Agricultural Science, 151 (1), 141-149. [BibTeX]
- Krappmann, K. , Wurmser, C. , Repsilber, D. , Fries, R. , Weikard, R. , Kesting, U. & Kühn, C. (2012). Short communication: evaluation of bovine milk residues from routine milk testing programs as DNA source for genotyping. Journal of Dairy Science, 95 (9), 5436-41. [BibTeX]
- Scheubert, L. , Luštrek, M. , Schmidt, R. , Repsilber, D. & Fuellen, G. (2012). Tissue-based Alzheimer gene expression markers-comparison of multiple machine learning approaches and investigation of redundancy in small biomarker sets. BMC Bioinformatics, 13 (1). [BibTeX]
- Brand, B. , Hartmann, A. , Repsilber, D. , Griesbeck-Zilch, B. , Wellnitz, O. , Kühn, C. , Ponsuksili, S. , Meyer, H. H. D. & et al. (2011). Comparative expression profiling of E. coli and S. aureus inoculated primary mammary gland cells sampled from cows with different genetic predispositions for somatic cell score. Genetics Selection Evolution, 43 (1). [BibTeX]
- Maertzdorf, J. , Ota, M. , Repsilber, D. , Mollenkopf, H. J. , Weiner, J. , Hill, P. C. & Kaufmann, S. H. E. (2011). Functional correlations of pathogenesis-driven gene expression signatures in tuberculosis. PLOS ONE, 6 (10). [BibTeX]
- Maertzdorf, J. , Repsilber, D. , Parida, S. K. , Stanley, K. , Roberts, T. , Black, G. , Walzl, G. & Kaufmann, S. H. E. (2011). Human gene expression profiles of susceptibility and resistance in tuberculosis. Genes and Immunity, 12 (1), 15-22. [BibTeX]
- Scheubert, L. , Schmidt, R. , Repsilber, D. , Lustrek, M. & Fuellen, G. (2011). Learning biomarkers of pluripotent stem cells in mouse. DNA research, 18 (4), 233-51. [BibTeX]
- Jacobsen, M. , Repsilber, D. , Kleinsteuber, K. , Gutschmidt, A. , Schommer-Leitner, S. , Black, G. , Walzl, G. & Kaufmann, S. H. E. (2011). Suppressor of cytokine signaling-3 is affected in T-cells from tuberculosis TB patients. Clinical Microbiology and Infection, 17 (9), 1323-31. [BibTeX]
- Repsilber, D. , Kern, S. , Telaar, A. , Walzl, G. , Black, G. F. , Selbig, J. , Parida, S. K. , Kaufmann, S. H. E. & et al. (2010). Biomarker discovery in heterogeneous tissue samples: taking the in-silico deconfounding approach. BMC Bioinformatics, 11. [BibTeX]
- Andorf, S. , Selbig, J. , Altmann, T. , Poos, K. , Witucka-Wall, H. & Repsilber, D. (2010). Enriched partial correlations in genome-wide gene expression profiles of hybrids (A. thaliana): a systems biological approach towards the molecular basis of heterosis. Theoretical and Applied Genetics, 120 (2), 249-59. [BibTeX]
- Warsow, G. , Greber, B. , Falk, S. S. I. , Harder, C. , Siatkowski, M. , Schordan, S. , Som, A. , Endlich, N. & et al. (2010). ExprEssence: revealing the essence of differential experimental data in the context of an interaction/regulation net-work. BMC Systems Biology, 4, 164. [BibTeX]
- Telaar, A. , Nürnberg, G. & Repsilber, D. (2010). Finding biomarker signatures in pooled sample designs: a simulation framework for methodological comparisons. Advances in Bioinformatics. [BibTeX]
- Repsilber, D. , Martinetz, T. & Björklund, M. (2009). Adaptive dynamics of regulatory networks: size matters. EURASIP Journal on Bioinformatics and Systems Biology. [BibTeX]
- Günther, J. , Koczan, D. , Yang, W. , Nürnberg, G. , Repsilber, D. , Schuberth, H. , Park, Z. , Maqbool, N. & et al. (2009). Assessment of the immune capacity of mammary epithelial cells: comparison with mammary tissue after challenge with Escherichia coli. Veterinary research (Print), 40 (4). [BibTeX]
- Hartmann, A. , Nürnberg, G. , Repsilber, D. , Janczyk, P. , Walz, C. , Ponsuksili, S. , Souffrant, W. & Schwerin, M. (2009). Effects of threshold choice on the results of gene expression profiling, using microarray analysis, in a model feeding experiment with rat. Archiv für Tierzucht, 52 (1), 65-78. [BibTeX]
- Degenkolbe, T. , Do, P. T. , Zuther, E. , Repsilber, D. , Walther, D. , Hincha, D. K. & Köhl, K. I. (2009). Expression profiling of rice cultivars differing in their tolerance to long-term drought stress. Plant Molecular Biology, 69 (1-2), 133-53. [BibTeX]
- Schuck, S. D. , Mueller, H. , Kunitz, F. , Neher, A. , Hoffmann, H. , Franken, K. L. C. M. , Repsilber, D. , Ottenhoff, T. H. M. & et al. (2009). Identification of T-cell antigens specific for latent mycobacterium tuberculosis infection. PLOS ONE, 4 (5). [BibTeX]
- Selbig, J. , Steinfath, M. & Repsilber, D. (2009). Network structure and biological function: reconstruction, modeling, and statistical approaches. EURASIP Journal on Bioinformatics and Systems Biology. [BibTeX]
- Andorf, S. , Gärtner, T. , Steinfath, M. , Witucka-Wall, H. , Altmann, T. & Repsilber, D. (2009). Towards systems biology of heterosis: a hypothesis about molecular network structure applied for the Arabidopsis metabolome. EURASIP Journal on Bioinformatics and Systems Biology. [BibTeX]
- Roehle, A. , Hoefig, K. P. , Repsilber, D. , Thorns, C. , Ziepert, M. , Wesche, K. O. , Thiere, M. , Loeffler, M. & et al. (2008). MicroRNA signatures characterize diffuse large B-cell lymphomas and follicular lymphomas. British Journal of Haematology, 142 (5), 732-44. [BibTeX]
- Schauer, N. , Semel, Y. , Balbo, I. , Steinfath, M. , Repsilber, D. , Selbig, J. , Pleban, T. , Zamir, D. & et al. (2008). Mode of inheritance of primary metabolic traits in tomato. The Plant Cell, 20 (3), 509-23. [BibTeX]
- Jacobsen, M. , Mattow, J. , Repsilber, D. & Kaufmann, S. H. E. (2008). Novel strategies to identify biomarkers in tuberculosis. Biological chemistry (Print), 389 (5), 487-95. [BibTeX]
- Hoefig, K. P. , Thorns, C. , Roehle, A. , Kaehler, C. , Wesche, K. O. , Repsilber, D. , Branke, B. , Thiere, M. & et al. (2008). Unlocking pathology archives for microRNA-profiling. Anticancer Research, 28 (1A), 119-123. [BibTeX]
- Jacobsen, M. , Repsilber, D. , Gutschmidt, A. , Neher, A. , Feldmann, K. , Mollenkopf, H. J. , Ziegler, A. & Kaufmann, S. H. E. (2007). Candidate biomarkers for discrimination between infection and disease caused by Mycobacterium tuberculosis. Journal of Molecular Medicine, 85 (6), 613-21. [BibTeX]
- Redestig, H. , Repsilber, D. , Sohler, F. & Selbig, J. (2007). Integrating functional knowledge during sample clustering for microarray data using unsupervised decision trees. Biometrical Journal, 49 (2), 214-29. [BibTeX]
- Höfig, K. P. , Repsilber, D. , Branke, B. , Roehle, A. , Thorns, C. , Jarutat, T. , Lenfert, E. , Kaehler, C. & et al. (2007). New Application for the LightCycler® 480 System: qPCR-based microRNA-Profiling. Biochemica, 4, 7-9. [BibTeX]
- Baxter, C. J. , Redestig, H. , Schauer, N. , Repsilber, D. , Patil, K. R. , Nielsen, J. , Selbig, J. , Liu, J. & et al. (2007). The metabolic response of heterotrophic Arabidopsis cells to oxidative stress. Plant Physiology, 143 (1), 312-25. [BibTeX]
- Jacobsen, M. , Repsilber, D. , Gutschmidt, A. , Neher, A. , Feldmann, K. , Mollenkopf, H. J. , Kaufmann, S. H. E. & Ziegler, A. (2006). Deconfounding microarray analysis: independent measurements of cell type proportions used in a regression model to resolve tissue heterogeneity bias. Methods of Information in Medicine, 45 (5), 557-63. [BibTeX]
- Snipen, L. , Repsilber, D. , Nyquist, L. , Ziegler, A. , Aakra, A. & Aastveit, A. (2006). Detection of divergent genes in microbial aCGH experiments. BMC Bioinformatics, 7. [BibTeX]
- Lindroos, H. , Vinnere, O. , Mira, A. , Repsilber, D. , Näslund, K. & Andersson, S. G. E. (2006). Genome rearrangements, deletions, and amplifications in the natural population of Bartonella henselae. Journal of Bacteriology, 188 (21), 7426-39. [BibTeX]
- Schumacher, J. , König, I. R. , Plume, E. , Propping, P. , Warnke, A. , Manthey, M. , Duell, M. , Kleensang, A. & et al. (2006). Linkage analyses of chromosomal region 18p11-q12 in dyslexia. Journal of neural transmission, 113 (3), 417-23. [BibTeX]
- Steinfath, M. , Repsilber, D. , Hische, M. , Schauer, N. , Fernie, A. R. & Selbig, J. (2006). Metabolite profiles as a reflection of physiological status: a methodological validation. Journal of Integrative Bioinformatics, 3 (2), 28. [BibTeX]
- Lindroos, H. L. , Mira, A. , Repsilber, D. , Vinnere, O. , Näslund, K. , Dehio, M. , Dehio, C. & Andersson, S. G. E. (2005). Characterization of the genome composition of Bartonella koehlerae by microarray comparative genomic hybridization profiling. Journal of Bacteriology, 187 (17), 6155-65. [BibTeX]
- Repsilber, D. , Mira, A. , Lindroos, H. , Andersson, S. & Ziegler, A. (2005). Data rotation improves genomotyping efficiency. Biometrical Journal, 47 (4), 585-98. [BibTeX]
- Jacobsen, M. , Repsilber, D. , Gutschmidt, A. , Neher, A. , Feldmann, K. , Mollenkopf, H. J. , Ziegler, A. & Kaufmann, S. H. E. (2005). Ras-associated small GTPase 33A, a novel T cell factor, is down-regulated in patients with tuberculosis. Journal of Infectious Diseases, 192 (7), 1211-8. [BibTeX]
- Repsilber, D. , Fink, L. , Jacobsen, M. , Bläsing, O. & Ziegler, A. (2005). Sample selection for microarray gene expression studies. Methods of Information in Medicine, 44 (3), 461-7. [BibTeX]
- Repsilber, D. , Mansmann, U. , Brunner, E. & Ziegler, A. (2005). Tutorial on microarray gene expression experiments: An introduction. Methods of Information in Medicine, 44 (3), 392-9. [BibTeX]
- Repsilber, D. & Ziegler, A. (2005). Two-color microarray experiments. Technology and sources of variance. Methods of Information in Medicine, 44 (3), 400-4. [BibTeX]
- König, I. R. , Repsilber, D. , Dahmen, G. , Kleensag, A. & Ziegler, A. (2004). Anwendungsorientierte Ausbildung im Teil "Medizinische Biometrie" des Querschnittsfachs Q1 durch Einbettung von Konzepten der Evidenzbasierten Medizin: Ein Erfahrungsbericht nach Umstellung auf die neue Ärztliche Approbationsordnung. Informatik, Biometrie und Epidemiologie in Medizin und Biologie, 35 (4), 220-228. [BibTeX]
- Repsilber, D. , Hennig, C. & Scholz, F. (2004). On sources of variation in expression of phosphoenolpyruvate-carboxylase in Norway spruce (Picea abies (L.) Karst.): PEPC genotype, genetic background and growth temperature. Forest Genetics, 11 (1), 73-81. [BibTeX]
- Repsilber, D. , Liljenström, H. & Andersson, S. G. E. (2002). Reverse engineering of regulatory networks: simulation studies on a genetic algorithm approach for ranking hypotheses. Biosystems (Amsterdam. Print), 66 (1-2), 31-41. [BibTeX]
- Repsilber, D. & Bialozyt, F. R. (2002). Spatial genetic patterns systematically accelerate and bias drift-based genetic erosion. Ecological Modelling, 148 (3), 251-261. [BibTeX]
- Repsilber, D. , Wiese, S. , Rachen, M. , Schröder, A. W. , Riesner, D. & Steger, G. (1999). Formation of metastable RNA structures by sequential folding during transcription: time-resolved structural analysis of potato spindle tuber viroid (-)-stranded RNA by temperature-gradient gel electrophoresis. RNA: A publication of the RNA Society, 5 (4), 574-84. [BibTeX]
Articles, reviews/surveys
- 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]
- Möller, S. , Saul, N. , Cohen, A. A. , Köhling, R. , Sender, S. , Murua Escobar, H. , Junghanss, C. , Cirulli, F. & et al. (2020). Healthspan pathway maps in C. elegans and humans highlight transcription, proliferation/biosynthesis and lipids. Aging, 12 (13), 12534-12581. [BibTeX]
Chapters in books
- Repsilber, D. & Jacobsen, M. (2011). Biomarker discovery: Introduction to Statistical Learning and Integrative Bioinformatics Approaches. In: Daniel A. Casciano & Saura C. Sahu, Handbook of Systems Toxicology (pp. 361-386). USA: John Wiley & Sons. [BibTeX]
- Steinfath, M. , Repsilber, D. , Scholz, M. , Walther, D. & Selbig, J. (2007). Integrated data analysis for genome-wide research. In: Sacha Baginsky & Alisdair R. Fernie, Plant Systems Biology (pp. 309-29). Switzerland: Springer. [BibTeX]
Conference papers
- Alijagic, A. , Södergren Seilitz, F. , Bredberg, A. , Hakonen, A. , Larsson, M. , Sjöberg, V. , Kotlyar, O. , Persson, A. & et al. (2024). Comprehensive chemical and toxicological screening of e-waste plastic chemicals. In: Toxicology Letters. Paper presented at 58th Congress of the European Societies of Toxicology (EUROTOX 2024), Copenhagen, Denmark, September 8-11, 2024. (pp. S66-S66). Elsevier. [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]
- 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]
- 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]
- Parodis, I. , Lindblom, J. , Toro-Dominguez, D. , Borghi, M. O. , Enman, Y. , Repsilber, D. , Mohan, C. , Alarcon-Riquelme, M. & et al. (2022). DRUG REPURPOSING FOR TREATING LUPUS NEPHRITIS BASED ON TRANSCRIPTOME PROFILING AND AUTOIMMUNITY-RELATED SEROLOGICAL MARKERS. In: Annals of the Rheumatic Diseases. Paper presented at European Congress of Rheumatology (EULAR 2022), Copenhagen, Denmark, June 1-4, 2022. (pp. 326-326). HighWire Press. [BibTeX]
- Lindblom, J. , Toro-Dominguez, D. , Borghi, M. O. , Iacobaeus, E. , Enman, Y. , Repsilber, D. , Mohan, C. , Alarcon-Riquelme, M. & et al. (2022). TRANSCRIPTOME PROFILING AND AUTOIMMUNITY-RELATED SEROLOGICAL MARKERS IDENTIFY TP53 AND C3AR AS DRUG TARGETS IN NEUROPSYCHIATRIC SYSTEMIC LUPUS ERYTHEMATOSUS. In: Annals of the Rheumatic Diseases. Paper presented at European Congress of Rheumatology (EULAR 2022), Copenhagen, Denmark, June 1-4, 2022. (pp. 326-326). HighWire Press. [BibTeX]
- Edebol-Carlman, H. , Rode, J. , König, J. , Hutchinson, A. , Repsilber, D. , Kiselev, A. , Thunberg, P. , Lathrop Stern, L. & et al. (2019). Evaluating the effects of probiotic intake on brain activity during an emotional attention task and blood markers related to stress in healthy subjects. Paper presented at Mind, Mood & Microbes, 2nd International Conference on Microbiota-Gut-Brain Axis, Amsterdam, The Netherlands, 17-18 January, 2019. [BibTeX]
- 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. [BibTeX]
- 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. [BibTeX]
- Welander, E. , Åström, M. , Enonge Fotabe, L. , Kardeby, C. , Tina, E. , Elgbratt, K. , Pourlotfi, A. , Abawi, A. & et al. (2018). Integrated analysis indicates reciprocal immune response dysregulations between bone marrow multipotent stromal cells and granulocytes at the mRNA but not at the protein level in myelofibrosis. Paper presented at Fortbildningsdagar i hematologi, Umeå, 3-5 Oktober, 2018. [BibTeX]
- Gorreja, F. , Rush, S. , Marques, T. M. , Repsilber, D. , Baker, A. , Wall, R. & Brummer, R. J. (2018). The impacts of probiotics and prebiotics on the gut mucosa and immune system through targeting inflammation and intestinal barrier function. Paper presented at Food and Inflammation - 2nd Conference of Food Science Sweden, Örebro, Sweden, 21 Nov., 2018. [BibTeX]
- Holster, S. , Repsilber, D. , Brummer, R. J. & König, J. (2017). Faecal microbiota transfer in irritable bowel syndrome: clinical outcomes of a randomised placebo-controlled trial. In: UEG Week 2017 Oral Presentations. Paper presented at United European Gastroenterology (UEG) Week, Barcelona, Spain, October 28 - November 1, 2017. (pp. A155-A156). Sage Publications. [BibTeX]
- Holster, S. , Brummer, R. J. , Repsilber, D. & König, J. (2017). Fecal Microbiota Transplantation in Irritable Bowel Syndrome and a Randomized Placebo-Controlled Trial. In: 2017 DDW Abstracts. Paper presented at Digestive Disease Week (DDW), Chicago, IL, USA, May 6-9, 2017. (pp. S101-S102). Saunders Elsevier. [BibTeX]
- 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. [BibTeX]
- Melzer, N. , Wittenburg, D. & Repsilber, D. (2012). Metabolites as new molecular traits and their role for genetic evaluation of traditional milk traits. In: Book of Abstracts of the 63rd Annual Meeting of the European Federation of Animal Science Bratislava, Slovakia, 27 - 31 August 2012. Paper presented at 63rd Annual Meeting of the European Federation oc Animal Science (EAAP 2012), Bratislava, Slovakia, 27-31 August, 2012. (pp. 88-88). Wageningen: Wageningen Academic Publishers. [BibTeX]
- Wittenburg, D. , Melzer, N. , Reinsch, N. & Repsilber, D. (2012). Milk metabolites and their genetic variability. In: Book of Abstracts of the 63rd Annual Meeting of the European Federation of Animal Science Bratislava, Slovakia, 27 - 31 August 2012. Paper presented at 63rd Annual Meeting of the European Federation of Animal Science (EAAP 2012), Bratislava, Slovakia, 27-31 August, 2012. (pp. 94-94). Wageningen: Wageningen Academic Publishers. [BibTeX]
- Schmidt, R. , Scheubert, L. , Lustrek, M. , Repsilber, D. & Fuellen, G. (2012). Pluripotent stem cells in mice. In: J. Mandas et al, Quality of Life through Quality of Information. Paper presented at 24th Medical Informatics in Europe Conference, MIE 2012, Pisa, Italy, 26-29 August 2012. (pp. 1159-61). Amsterdam, Netherlands: IOS Press. [BibTeX]
- Graunke, K. L. , Nürnberg, G. , Repsilber, D. , Schön, P. C. & Langbein, J. (2012). Temperamentbeschreibung am Beispiel des Rinds: ein multidimensionaler Ansatz mit Originaldaten. In: 13th Day of the Doctoral Student abstracts, 24 May 2012 Dummerstorf. Paper presented at 13th Day of the Doctoral Student FBN Dummerstorf, Dummerstorf, Germany, 24 May, 2012. (pp. 39-42). Dummerstorf: FBN. [BibTeX]
- Repsilber, D. (2011). Biosignatures from blood: disentagling patterns and cell types in heterogeneous tissue. Paper presented at 11th Swedish Annual Bioinformatics Workshop (SBW2011), Lund, Sweden, September 29-30, 2011. [BibTeX]
- Melzer, N. , Wittenburg, D. & Repsilber, D. (2011). Including metabolomic profiles to improve genetic value prediction: an integrated bioinformatics approach using weighted genome-wide marker information. In: Seyfert, H.-M., Viereck, G., 12th Day of the Doctoal Student abstracts; 19 May 2011, Dummerstorf. Paper presented at 12th Day of the Doctoal Student FBN Dummerstorf, Dummerstorf, Germany, 19 May 2011. (pp. 55-58). Dummerstorf, Germany: FBN. [BibTeX]
- Telaar, A. , Liland, K. H. , Repsilber, D. & Nürnberg, G. (2011). Pooled samples for classification: What about PPLS-DA?. In: Seyfert, H.-M., Viereck, G., 12th Day of the Doctoral Student FBN Dummerstorf abstracts; 19 May 2011, Dummerstorf. Paper presented at 12th Day of the Doctoral Student FBN Dummerstorf, Dummerstorf, Germany, 19 May, 2011. (pp. 52-54). Dummerstorf, Germany: FBN. [BibTeX]
- Scheubert, L. , Schmidt, R. , Lustrek, M. , Repsilber, D. & Fuellen, G. (2011). Searching for Biomarkers of Pluripotent Stem Cells. In: Blettner M; Klug S, Abstractand 56. GMDS Jahrestagung. Paper presented at 56. GMDS Jahrestagung, Mainz, Germany, 26-29 September, 2011. (pp. 55-56). Mainz, Germany: Kirchheim & Co. [BibTeX]
- Melzer, N. , Wittenburg, D. & Repsilber, D. (2010). Accounting for a complex genotype-phenotype map in milk phenotypes from genome-wide data. In: Statistical Computing 2010 Abstracts der 42. Arbeitstagung. Paper presented at Statistical Computing 2010, Reisensburg, Germany, 20-23 June, 2010. [BibTeX]
- Melzer, N. , Jakubowski, S. , Hartwig, S. , Kesting, U. , Wolf, S. , Nürnberg, G. , Reinsch, N. & Repsilber, D. (2010). Design, infrastructure and database structure for a study on predicting milk phenotypes from genome-wide SNP markers and metabolite profiles. In: Proceedings of the 9th World Congress on Genetics Applied to Livestock Production. Paper presented at 9th World Congress on Genetics Applied to Livestock Production, Leipzig, Germany, August 1-6, 2010. (pp. 427-431). German Society for Animal Science. [BibTeX]
- Telaar, A. , Repsilber, D. & Nürnberg, G. (2010). Finding biomarkers in pooled samples. In: Seyfert, H.-M., Viereck, G., 11th Day of the Doctoral Student FBN Dummerstorf abstracts; 19 May 2010, Dummerstorf. Paper presented at 11th Day of the Doctoral Student FBN Dummerstorf,19 May, 2010. (pp. 11-14). Dummerstorf, Germany: FBN. [BibTeX]
- Andorf, S. , Selbig, J. , Altmann, T. , Witucka-Wall, H. & Repsilber, D. (2010). Heterosis in Arabidopsis thaliana: A metabolite network structure approach. In: 11th Day of the Doktoral Student abstract; 19 May 2010, Dummerstorf. Paper presented at 11th Day of the Doctoral Student FBN Dummerstorf, Dummerstorf, Germany, 19 May, 2010. (pp. 7-10). Dummerstorf, Germany: FBN. [BibTeX]
- Andorf, S. , Selbig, J. , Meyer, R. , Altmann, T. & Repsilber, D. (2010). Integrating a molecular network hypothesis and QTL results for heterosis in Arabidopsis thaliana. In: Statistical Computings 2010 Abstracts der 42. Arbeitstagung. Paper presented at Statistical Computings 2010, Reisensburg, Germany, 20-23 June, 2010. [BibTeX]
- Melzer, N. , Wittenburg, D. & Repsilber, D. (2010). Simulating SNP data: influence of simulation design on the extent of linkage disequilibrium. In: Seyfert, H.-M., Viereck, G., 11th Day of the Doctoral Student abstracts; 19 May 2010, Dummerstorf. Paper presented at 11th Day of the Doctoral Student (FBN Dummerstorf),Dummerstorf, Germany, 19 May, 2010. (pp. 19-22). Dummerstorf, Germany: FBN. [BibTeX]
- Andorf, S. & Repsilber, D. (2009). Molecular network structures in heterozygotes: A systems biological approach to heterosis. In: R. Foraita, T. Gerds, L. A. Hothorn, M. Kieser, O. Kuß, U. Munzel, R. Vonk, A. Ziegler, Neue Methoden der Biometrie 55. Biometrisches Kolloquium. Paper presented at 55. Biometrisches Kolloquium. [BibTeX]
- Andorf, S. , Altmann, T. , Witucka-Wall, H. , Selbig, J. & Repsilber, D. (2009). Molecular network structures in heterozygotes: A systems-biology approach to heterosis. Paper presented at International Conference on Heterosis in Plants: Genetic and molecular causes and optimal exploitation in breeding, Hohenheim, Stuttgart, Germany, September 7-9, 2009. [BibTeX]
- Repsilber, D. , Kern, S. , Selbig, J. & Jacobsen, M. (2008). Analysing and interpreting gene expression in heterogeneous tissues. In: Hothorn, L A; Mansmann, U; Tutz, G; Burger, U and Mejza, S, Statistics and Life Sciences Perspectives and Challenges. Paper presented at Lifestat2008, Munich, Germany, 10-13 March, 2008. (pp. 126- [BibTeX]
- Repsilber, D. (2008). From spots to candidates: image analysis, data processing, candidate selection. In: Hämostaseologie. Paper presented at Gestellschaft für Thrombose- und Hämostasforscung (GTH) 2008, Weisbaden, Germany, 20-23 February, 2008. (pp. A5 WS-04-02- [BibTeX]
- Repsilber, D. , Selbig, J. & Ziegler, A. (2006). Ensuring comparability for valid design and analysis of microarray gene expression experiments. In: Clinical Chemistry and Laboratory Medicine. Paper presented at Annual Congress of the Society of Clinical Chemistry and Laboratory Medicine (DGKL), Mannheim, Germany, October 1-4, 2006. (pp. A101-A102). Germany: Walter de Gruyter. [BibTeX]
- Ziegler, A. & Repsilber, D. (2004). Data rotation for efficient comparative genomics. Paper presented at International Conference on Analysis of Genomic Data, Harvard Medical School, Boston, USA, May 10-11, 2004. [BibTeX]
- Repsilber, D. , Mira, A. , Lindroos, H. , Ziegler, A. & Andersson, S. (2004). Reducing false positive rates by rotating microarray-based genomotyping data. In: Biometrical Journal. [BibTeX]
- Repsilber, D. & Kim, J. T. (2003). Developing and Testing methods for microarray data analysis Using an Artificial life framework. In: Banzhaf, W, Christaller, T, Dittrich, P, Kim, JT, Ziegler, J, Advances in artificial life 7th European Conference, ECAL 2003 Dortmund, Germany, September 14-17, 2003 Proceedings. Paper presented at 7th European Conference on Artifical Life, Dortmund, Germany,14-17 September, 2003. (pp. 686-695). Berlin, Germany: [BibTeX]
- Repsilber, D. , Kim, J. T. , Liljenström, H. & Martinetz, T. (2002). Using coarse-grained, discrete systems for data-driven inference of regulatory gene networks: Perspectives and limitations for reverse engineering. In: Polani, D., Kim, J. T., Martinetz, T., Proceedings of the Fifth German Workshop on Artificial Life (GWAL2002). Paper presented at Fifth German Workshop on Artificial Life 2002, (GWAL 5), Lübeck, Germany, 18-20 Mars, 2002. (pp. 67-76). [BibTeX]
Manuscripts
- Herring, M. , Persson, A. , Karlsson, R. , Repsilber, D. , Ejdebäck, M. , Särndahl, E. , Nikaein, N. & Kotlyar, O. Analysis of NLRP3 trigger-dependency on ASC-speck formation and lifetime. [BibTeX]
- Roca Rubio, M. F. , Repsilber, D. , Kremp, C. , Folkesson, M. , Evertsson, N. , Ganda Mall, J. , Kadi, F. , Brummer, R. & et al. Associations between various markers of intestinal barrier and immune function after a high-intensity exercise challenge. [BibTeX]
- Holster, S. , Repsilber, D. , Geng, D. , Hyötyläinen, T. , Salonen, A. , Lindqvist, C. M. , Rajan, S. K. , De Vos, W. M. & et al. Correlations between microbiota and metabolites after faecal microbiota transfer in irritable bowel syndrome. [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]
- Sundin, J. , Rangel, I. , Repsilber, D. & Brummer, R. J. Cytokine response after stimulation with key commensal bacteria differ in post-infectious irritable bowel syndrome (PI-IBS) patients compared to healthy subjects. [BibTeX]
- Holster, S. , Repsilber, D. , Geng, D. , Hyötyläinen, T. , Lindqvist, C. M. , de Vos, W. , Brummer, R. J. & König, J. Faecal microbiota transfer in irritable bowel syndrome results inaltered correlations between the gut microbiota and its metabolites. [BibTeX]
- Rajan, S. K. , Lindqvist, C. M. , Sihlbom, C. , Olsson, B. , Brummer, R. J. , Schoultz, I. & Repsilber, D. Functional proteomics profiles in faecal sample microbiomes : Validating NGS-based predictions with LC-MS proteomics. [BibTeX]
- Göthlin Eremo, A. , Tina, E. , Kruse, R. , Fransén, K. , Wegman, P. , Repsilber, D. , Montgomery, S. , Sollie, T. & et al. Gene expression profiles in breast tumors from tamoxifen treated patients with and without distant recurrence. [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]
- Zegeye, M. M. , Andersson, J. S. , Wennberg, P. , Repsilber, D. , Sirsjö, A. & Ljungberg, L. Interleukin-6 as a mediator of the association between traditional risk factors and future Myocardial Infarction : A nested case-control study. [BibTeX]
- Rangel, I. , Sundin, J. , Fuentes, S. , Repsilber, D. , de Vos, W. M. & Brummer, R. J. Mucosal-associated microbiota differs less than fecal-associated microbiota between Irritable Bowel Syndrome patients and healthy subjects. [BibTeX]
- Engelheart, S. , Andrén, D. , Repsilber, D. , Bertéus Forslund, H. & Brummer, R. J. Nutritional status in older people : an explorative analysis. [BibTeX]
- Günaltay, S. , Repsilber, D. , Helenius, G. , Nyhlin, N. , Bohr, J. & Hultgren-Hörnquist, E. Oligoclonal T cell receptor repertoire in colonic biopsies of microscopic and ulcerative colitis patients. [BibTeX]
- Östlund-Lagerström, L. , Kihlgren, A. , Repsilber, D. , Björkstén, B. , Brummer, R. J. & Schoultz, I. Probiotic administration among free-living older adults : a double blinded, randomised, placebo-controlled clinical trial. [BibTeX]
- Edebol-Carlman, H. , Rode, J. , König, J. , Repsilber, D. , Hutchinson, A. N. , Thunberg, P. , Persson, J. , Kiselev, A. & et al. Probiotic mixture containing Lactobacillus helveticus, Bifidobacterium longum and Lactiplantibacillus plantarum affects brain responses to an arithmetic stress task in healthy subjects : A randomized clinical trial. [BibTeX]
- Rode, J. , Edebol-Carlman, H. , König, J. , Repsilber, D. , Hutchinson, A. N. , Thunberg, P. , Andersson, P. , Persson, J. & et al. Probiotic mixture containing Lactobacillus helveticus, Bifidobacterium longum and Lactiplantibacillus plantarum affects brain responses towards an emotional task in healthy subjects : A randomized clinical trial. [BibTeX]
- Rode, J. , Edebol-Carlman, H. , König, J. , Hutchinson, A. N. , Repsilber, D. , Thunberg, P. , Persson, J. & Brummer, R. J. Probiotic mixture containing Lactobacillus helveticus, Bifidobacterium longum and Lactiplantibacillus plantarum affects resting state brain function in healthy subjects : A randomized clinical trial. [BibTeX]
Reports
- Hofner, B. , Vaas, L. , Lawo, J. , Müller, T. , Sikorski, J. & Repsilber, D. (2012). Biologists meet Statisticians: A Workshop for young scientists to foster interdisciplinary team work.. Cornell University Library (Technical Report arXiv.org ). [BibTeX]