Søren Brunak

Søren Brunak

Professor

ORCID: 0000-0003-0316-5866

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  1. Published

    Modeling of waning immunity after SARS-CoV-2 vaccination and influencing factors

    Pérez-Alós, L., Armenteros, J. J. A., Madsen, J. R., Hansen, C. B., Jarlhelt, I., Hamm, S. R., Heftdal, L. D., Pries-Heje, M. M., Møller, D. L., Fogh, K., Hasselbalch, R. B., Rosbjerg, A., Brunak, S., Sørensen, E., Larsen, M. A. H., Ostrowski, S. R., Frikke-Schmidt, R., Bayarri-Olmos, R., Hilsted, L. M., Iversen, K. K. & 3 others, Bundgård, Henning, Nielsen, Susanne Dam & Garred, Peter, 2022, In: Nature Communications. 13, 1, 11 p., 1614.

    Research output: Contribution to journal › Journal article › Research › peer-review

  2. Published

    The small and large intestine contain related mesenchymal subsets that derive from embryonic Gli1+ precursors

    Pærregaard, S. I., Wulff, L., Schussek, S., Niss, K., Mörbe, U., Jendholm, J., Wendland, K., Andrusaite, A. T., Brulois, K. F., Nibbs, R. J. B., Sitnik, K., Mowat, A. M. I., Butcher, E. C., Brunak, Søren & Agace, W. W., 2023, In: Nature Communications. 14, 1, 2307.

    Research output: Contribution to journal › Journal article › Research › peer-review

  3. Published

    KinMutRF: a random forest classifier of sequence variants in the human protein kinase superfamily

    Pons, T., Vazquez, M., Matey-Hernandez, M. L., Brunak, Søren, Valencia, A. & Izarzugaza, J. M., 23 Jun 2016, In: BMC Genomics. 17, Suppl 2, 11 p., 396.

    Research output: Contribution to journal › Journal article › Research › peer-review

  4. Published

    Transcriptional interactions suggest niche segregation among microorganisms in the human gut

    Plichta, D. R., Juncker, A. S., Bertalan, M., Rettedal, E., Gautier, L., Varela, E., Manichanh, C., Fouqueray, C., Levenez, F., Nielsen, T., Doré, J., Machado, A. M. D., de Evgrafov, M. C. R., Hansen, T., Jørgensen, T., Bork, P., Guarner, F., Pedersen, O., Metagenomics of the Human Intestinal Tract (MetaHIT) Consortium, Sommer, M. O. A. & 4 others, Ehrlich, S. D., Sicheritz-Pontén, T., Brunak, Søren & Nielsen, H. B., 26 Aug 2016, In: Nature Microbiology. 1, p. 1-6 6 p., 16152.

    Research output: Contribution to journal › Letter › Research › peer-review

  5. Published

    A deep learning algorithm to predict risk of pancreatic cancer from disease trajectories

    Placido, D., Yuan, B., Hjaltelin, J. X., Zheng, C., Haue, A. D., Chmura, P. J., Yuan, C., Kim, J., Umeton, R., Antell, G., Chowdhury, A., Franz, A., Brais, L., Andrews, E., Marks, D. S., Regev, A., Ayandeh, S., Brophy, M. T., Do, N. V., Kraft, P. & 5 others, Wolpin, B. M., Rosenthal, M. H., Fillmore, N. R., Brunak, Søren & Sander, C., 2023, In: Nature Medicine. 29, p. 1113-1122

    Research output: Contribution to journal › Journal article › Research › peer-review

  6. Published

    Development of a dynamic prediction model for unplanned ICU admission and mortality in hospitalized patients

    Placido, Davide, Thorsen-Meyer, H., Kaas-Hansen, Benjamin Skov, Reguant, R. & Brunak, Søren, 2023, In: PLOS Digital Health. 2, 6, 18 p., e0000116.

    Research output: Contribution to journal › Journal article › Research › peer-review

  7. Published

    Development and validation of a dynamic prediction model for unplanned ICU admission and mortality in hospitalized patients

    Placido, Davide, Thorsen-Meyer, H., Kaas-Hansen, Benjamin Skov, Reguant, R. & Brunak, Søren, 2022.

    Research output: Working paper › Preprint › Research

  8. Published

    SignalP 4.0: discriminating signal peptides from transmembrane regions

    Petersen, T. N., Brunak, Søren, von Heijne, G. & Nielsen, H., 2011, In: Nature Methods. 8, 10, p. 785-6 2 p.

    Research output: Contribution to journal › Journal article › Research › peer-review

  9. Published

    Meta-analysis of heterogeneous data sources for genome-scale identification of risk genes in complex phenotypes

    Pers, T. H., Hansen, N. T., Hansen, K. L., Koefoed, P., Dworzynski, P., Miller, M. L., Flint, T. J., Mellerup, E., Dam, H., Andreassen, O. A., Djurovic, S., Melle, I., Børglum, A. D., Werge, T., Purcell, S., Ferreira, M. A., Kouskoumvekaki, I., Workman, C., Hansen, T., Mors, O. & 1 others, Brunak, Søren, 11 Apr 2011, In: Genetic Epidemiology. 35, 5, p. 318-332 5 p.

    Research output: Contribution to journal › Journal article › Research › peer-review

  10. Published

    MetaRanker 2.0: a web server for prioritization of genetic variation data

    Pers, T. H., Dworzynski, P., Thomas, C. E., Hansen, K. L. & Brunak, Søren, 1 Jul 2013, In: Nucleic Acids Research. 41, W1, p. W104-W108

    Research output: Contribution to journal › Journal article › Research › peer-review

  11. Published

    A unidirectional mapping of ICD-8 to ICD-10 codes, for harmonized longitudinal analysis of diseases

    Pedersen, M. K., Eriksson, R., Reguant, R., Collin, C., Pedersen, H. K., Sørup, Freja Karuna Hemmingsen, Simon, C., Birch, A. M., Larsen, Michael, Nielsen, A. P., Belling, K. & Brunak, Søren, 2023, In: European Journal of Epidemiology. 38, p. 1043–1052 10 p.

    Research output: Contribution to journal › Journal article › Research › peer-review

  12. Published

    Pancreatic Islet Protein Complexes and Their Dysregulation in Type 2 Diabetes

    Pedersen, H. K., Gudmundsdottir, V. & Brunak, Søren, 2017, In: Frontiers in Genetics. 8, 43.

    Research output: Contribution to journal › Journal article › Research › peer-review

  13. Published

    Ranking factors involved in diabetes remission after bariatric surgery using machine-learning integrating clinical and genomic biomarkers

    Pedersen, H. K., Gudmundsdottir, V., Pedersen, M. K., Brorsson, C., Brunak, Søren & Gupta, R., 2016, In: npj Genomic Medicine. 1, 16035.

    Research output: Contribution to journal › Journal article › Research › peer-review

  14. Published

    A computational framework to integrate high-throughput "-omics" datasets for the identification of potential mechanistic links

    Pedersen, H. K., Forslund, S. K., Gudmundsdottir, V., Petersen, A. Ø., Hildebrand, F., Hyötyläinen, T., Nielsen, T., Hansen, Torben, Bork, P., Ehrlich, S. D., Brunak, Søren, Oresic, M., Pedersen, Oluf Borbye & Nielsen, H. B., 2018, In: Nature Protocols. 13, 12, p. 2781-2800 20 p.

    Research output: Contribution to journal › Journal article › Research › peer-review

  15. Published

    Human gut microbes impact host serum metabolome and insulin sensitivity

    Pedersen, H. K., Gudmundsdottir, V., Nielsen, H. B., Hyotylainen, T., Nielsen, T., Jensen, B. A. H., Forslund, K., Hildebrand, F., Prifti, E., Falony, G., Le Chatelier, E., Levenez, F., Doré, J., Mattila, I., Plichta, D. R., Pöhö, P., Hellgren, L. I., Arumugam, M., Sunagawa, S., Vieira-Silva, S. & 14 others, Jørgensen, T., Holm, J. B., Trošt, K., Kristiansen, Karsten, Brix, Susanne, Raes, J., Wang, J., Hansen, Torben, Bork, P., Brunak, Søren, Oresic, M., Ehrlich, S. D., Pedersen, Oluf Borbye & MetaHIT Consortium, M. C., 2016, In: Nature. 535, 7612, p. 376-381 6 p.

    Research output: Contribution to journal › Journal article › Research › peer-review

  16. A DNA structural atlas for Escherichia coli

    Pedersen, A. G., Jensen, L. J., Brunak, Søren, Staerfeldt, H. H. & Ussery, D., 2000, In: Journal of Molecular Biology. 299, 4, p. 907-30 24 p.

    Research output: Contribution to journal › Journal article › Research › peer-review

  17. Published

    ImmunoGrid, an integrative environment for large-scale simulation of the immune system for vaccine discovery, design and optimization

    Pappalardo, F., Halling-Brown, M. D., Rapin, N., Zhang, P., Alemani, D., Emerson, A., Paci, P., Duroux, L. P., Pennisi, M., Palladini, A., Miotto, O., Churchill, D., Rossi, E., Shepherd, A. J., Moss, D. S., Castiglione, F., Bernaschi, M., Lefranc, M-P., Brunak, S., Motta, S. & 3 others, Lollini, P., Basford, K. E. & Brusic, V., 2009, In: Briefings in Bioinformatics. 10, 3, p. 330-40 11 p.

    Research output: Contribution to journal › Journal article › Research › peer-review

  18. Published

    SNP mining porcine ESTs with MAVIANT, a novel tool for SNP evaluation and annotation

    Panitz, F., Stengaard, H., Hornshøj, H., Gorodkin, J., Hedegaard, J., Cirera, S., Thomsen, B. S., Madsen, L. B., Høj, A., Vingborg, R., Zahn, B., Wang, X., Wang, X., Wernersson, R., Jørgensen, C. B., Scheibye-Knudsen, K., Arvin, T., Lumholdt, S., Sawera, M., Green, T. & 5 others, Nielsen, B., Havgaard, Jakob Hull, Brunak, Søren, Fredholm, Merete & Bendixen, C., 2007, In: Bioinformatics. 23, 13, p. i387-91 5 p.

    Research output: Contribution to journal › Journal article › Research › peer-review

  19. Published

    Integrative pathway enrichment analysis of multivariate omics data

    Paczkowska, M., Barenboim, J., Sintupisut, N., Fox, N. S., Zhu, H., Abd-Rabbo, D., Mee, M. W., Boutros, P. C., Abascal, F., Amin, S. B., Bader, G. D., Beroukhim, R., Bertl, J., Boroevich, K. A., Brunak, S., Campbell, P. J., Carlevaro-Fita, J., Chakravarty, D., Chan, C. W. Y., Chen, K. & 30 others, Choi, J. K., Deu-Pons, J., Dhingra, P., Diamanti, K., Feuerbach, L., Fink, J. L., Fonseca, N. A., Frigola, J., Gambacorti-Passerini, C., Garsed, D. W., Gerstein, M., Getz, G., Gonzalez-Perez, A., Guo, Q., Gut, I. G., Haan, D., Hamilton, M. P., Haradhvala, N. J., Harmanci, A. O., Helmy, M., Herrmann, C., Hess, J. M., Hobolth, A., Hodzic, E., Hong, C., Hornshøj, H., Nielsen, M. M., Pedersen, J. S., Sidiropoulos, N. & Weischenfeldt, Joachim Lütken, 5 Feb 2020, In: Nature Communications. 11, 1, 735.

    Research output: Contribution to journal › Journal article › Research › peer-review

  20. Published

    In Silico Systems Pharmacology to Assess Drug's Therapeutic and Toxic Effects

    Orozco, A. A., Audouze, K., Brunak, Søren & Taboureau, O., 2016, In: Current Pharmaceutical Design. 22, 46, p. 6895-6902 8 p.

    Research output: Contribution to journal › Journal article › Research › peer-review

  21. Published

    Unexplored therapeutic opportunities in the human genome

    Oprea, T. I., Bologa, C. G., Brunak, S., Campbell, A., Gan, G. N., Gaulton, A., Gomez, S. M., Guha, R., Hersey, A., Holmes, J., Jadhav, A., Jensen, L. J., Johnson, G. L., Karlson, A., Leach, A. R., Ma'ayan, A., Malovannaya, A., Mani, S., Mathias, S. L., McManus, M. T. & 21 others, Meehan, T. F., von Mering, C., Muthas, D., Nguyen, D., Overington, J. P., Papadatos, G., Qin, J., Reich, C., Roth, B. L., Schürer, S. C., Simeonov, A., Sklar, L. A., Southall, N., Tomita, S., Tudose, I., Ursu, O., Vidovic, D., Waller, A., Westergaard, David, Yang, J. J. & Zahoránszky-Köhalmi, G., 2018, In: Nature Reviews. Drug Discovery. 17, 5, p. 317-332 16 p.

    Research output: Contribution to journal › Review › Research › peer-review

  22. Published

    Quantitative phosphoproteomics reveals widespread full phosphorylation site occupancy during mitosis

    Olsen, Jesper Velgaard, Vermeulen, M., Santamaria, A., Kumar, C., Miller, M. L., Jensen, Lars Juhl, Gnad, F., Cox, J., Jensen, T. S., Nigg, E. A., Brunak, Søren & Mann, Matthias, 2010, In: Science Signaling. 3, 104, p. ra3 15 p.

    Research output: Contribution to journal › Journal article › Research › peer-review

  23. Published

    Deficit of homozygosity among 1.52 million individuals and genetic causes of recessive lethality

    Oddsson, A., Sulem, P., Sveinbjornsson, G., Arnadottir, G. A., Steinthorsdottir, V., Halldorsson, G. H., Atlason, B. A., Oskarsson, G. R., Helgason, H., Nielsen, H. S., Westergaard, D., Karjalainen, J. M., Katrinardottir, H., Fridriksdottir, R., Jensson, B. O., Tragante, V., Ferkingstad, E., Jonsson, H., Gudjonsson, S. A., Beyter, D. & 31 others, Moore, K. H. S., Thordardottir, H. B., Kristmundsdottir, S., Stefansson, O. A., Rantapää-Dahlqvist, S., Sonderby, I. E., Didriksen, Maria, Stridh, P., Haavik, J., Tryggvadottir, L., Frei, O., Walters, G. B., Kockum, I., Hjalgrim, Henrik, Olafsdottir, T. A., Selbaek, G., Nyegaard, M., Erikstrup, C., Brodersen, T., Saevarsdottir, S., Olsson, T., Nielsen, K. R., Hansen, Thomas Folkmann, Brunak, Søren, Jacobsen, R. L., Brunak, Søren, Banasik, Karina, Askling, J., Pedersen, Ole Birger Vesterager, Ostrowski, Sisse Rye & DBDS Genomic Consortium, D. G. C., 2023, In: Nature Communications. 14, 15 p., 3453.

    Research output: Contribution to journal › Journal article › Research › peer-review

  24. Published

    Post-load glucose subgroups and associated metabolic traits in individuals with type 2 diabetes: An IMI-DIRECT study

    Obura, M., Beulens, J. W. J., Slieker, R., Koopman, A. D. M., Hoekstra, T., Nijpels, G., Elders, P., Koivula, R. W., Kurbasic, A., Laakso, M., Hansen, T. H., Ridderstråle, M., Hansen, T., Pavo, I., Forgie, I., Jablonka, B., Ruetten, H., Mari, A., McCarthy, M. I., Walker, M. & 19 others, Heggie, A., McDonald, T. J., Perry, M. H., De Masi, F., Brunak, Søren, Mahajan, A., Giordano, G. N., Kokkola, T., Dermitzakis, E., Viñuela, A., Pedersen, Oluf Borbye, Schwenk, J. M., Adamski, J., Teare, H. J. A., Pearson, E. R., Franks, P. W., Hart, L. M. T., Rutters, F. & for the IMI-DIRECT Consortium, F. T. I. C., 2020, In: PLoS ONE. 15, 11, 11 p., e0242360.

    Research output: Contribution to journal › Journal article › Research › peer-review

  25. Published

    Investigating the impact of missense mutations in hCES1 by in silico structure-based approaches

    Nzabonimpa, G. S., Rasmussen, Henrik Berg, Brunak, Søren, Taboureau, O. & INDICES Consortium, I. C., Jun 2016, In: Drug Metabolism and Personalized Therapy. 31, 2, p. 97-106 10 p.

    Research output: Contribution to journal › Journal article › Research › peer-review

  26. Published

    Roadmap for a precision-medicine initiative in the Nordic region

    Njølstad, P. R., Andreassen, O. A., Brunak, S., Børglum, A. D., Dillner, J., Esko, T., Franks, P. W., Freimer, N., Groop, L., Heimer, H., Hougaard, D. M., Hovig, E., Hveem, K., Jalanko, A., Kaprio, J., Knudsen, G. P., Melbye, M., Metspalu, A., Mortensen, P. B., Palmgren, J. & 11 others, Palotie, A., Reed, W., Stefánsson, H., Stitziel, N. O., Sullivan, P. F., Thorsteinsdóttir, U., Vaudel, M., Vuorio, E., Werge, Thomas, Stoltenberg, C. & Stefánsson, K., 2019, In: Nature Genetics. 51, p. 924-930

    Research output: Contribution to journal › Comment/debate › Research

  27. Published

    Herpes Simplex Virus Type 1 infection is associated with suicidal behavior and first registered psychiatric diagnosis in a healthy population

    Nissen, J., Trabjerg, B., Pedersen, M. G., Banasik, K., Pedersen, O. B., Sørensen, E., Nielsen, K. R., Erikstrup, C., Petersen, M. S., Paarup, H. M., Bruun-Rasmussen, P., Westergaard, D., Hansen, T. F., Pedersen, C. B., Werge, T., Torrey, F., Hjalgrim, H., Mortensen, P. B., Yolken, R., Brunak, S. & 2 others, Ullum, H. & Burgdorf, K. S., Oct 2019, In: Psychoneuroendocrinology. 108, p. 150-154

    Research output: Contribution to journal › Journal article › Research › peer-review

  28. Published

    Effects of active farnesoid X receptor on GLUTag enteroendocrine L cells

    Niss, K., Jakobsson, M. E., Westergaard, David, Belling, K. G., Olsen, Jesper Velgaard & Brunak, Søren, 2020, In: Molecular and Cellular Endocrinology. 517, 9 p., 110923.

    Research output: Contribution to journal › Journal article › Research › peer-review

  29. Published

    Complete Topological Mapping of a Cellular Protein Interactome Reveals Bow-Tie Motifs as Ubiquitous Connectors of Protein Complexes

    Niss, K., Gomez-Casado, C., Hjaltelin, Jessica Xin, Joeris, T., Agace, W. W., Belling, K. G. & Brunak, Søren, 2020, In: Cell Reports. 31, 11, 15 p., 107763.

    Research output: Contribution to journal › Journal article › Research › peer-review

  30. Published

    Mapping the human genetic architecture of COVID-19

    Niemi, M. E. K., Karjalainen, J., Liao, R. G., Neale, B. M., Daly, M., Ganna, A., Pathak, G. A., Andrews, S. J., Kanai, M., Veerapen, K., Fernandez-Cadenas, I., Schulte, E. C., Striano, P., Marttila, M., Minica, C., Marouli, E., Karim, M. A., Wendt, F. R., Savage, J., Sloofman, L. & 41 others, Butler-Laporte, G., Kim, H., Kanoni, S., Okada, Y., Byun, J., Han, Y., Uddin, M. J., Smith, G. D., Willer, C. J., Buxbaum, J. D., Karjalainen, J., Mehtonen, J., Folkersen, L., Moltke, Ida, Hinney, A., Wang, C., Ellinghaus, D., Brunak, Søren, Castro, P., Guindo Martínez, Marta, Lee, J. Y., Loos, Ruth, Zhao, J. H., Sun, Y. V., Wang, B., Parker, R., Garcia, S. M., Smith, O., Davis, C., COVID-19 Host Genetics Initiative, C. H. G. I., 23andMe COVID-19 Team, 2. C. T., Norwegian SARS-CoV-2 Study Grp, N. S. S. G., Humanitas COVID-19 Task Force, H. C. T. F., Humanitas Gavazzeni COVID-19 Task, H. G. C. T., FHoGID, F., RegCOVID, R., P-PredictUs, P., SeroCOVID, S., CRiPSI, C., Genes & Hlth Res Team, G. &. H. R. T. & UCLA Hlth ATLAS Data Mart Working, U. H. A. D. M. W., 2021, In: Nature. 600, p. 472-477

    Research output: Contribution to journal › Journal article › Research › peer-review

  31. Published

    A Brief History of Protein Sorting Prediction

    Nielsen, H., Tsirigos, Konstantinos, Brunak, Søren & von Heijne, G., 2019, In: The Protein Journal. 38, 3, p. 200-216 17 p.

    Research output: Contribution to journal › Review › Research › peer-review

  32. Published

    Survival prediction in intensive-care units based on aggregation of long-term disease history and acute physiology: a retrospective study of the Danish National Patient Registry and electronic patient records

    Nielsen, A. B., Thorsen-Meyer, H. C., Belling, K., Nielsen, A. P., Thomas, Cecilia Engel, Chmura, Piotr Jaroslaw, Lademann, M., Moseley, P. L., Heimann, M., Dybdahl, L., Spangsege, L., Hulsen, P., Perner, Anders & Brunak, Søren, 2019, In: The Lancet Digital Health. 1, 2, p. e78-e89 12 p.

    Research output: Contribution to journal › Journal article › Research › peer-review

  33. Published

    Pharos: Collating protein information to shed light on the druggable genome

    Nguyen, D-T., Mathias, S., Bologa, C., Brunak, S., Fernandez, N., Gaulton, A., Hersey, A., Holmes, J., Jensen, L. J., Karlsson, A., Liu, G., Ma'ayan, A., Mandava, G., Mani, S., Mehta, S., Overington, J., Patel, J., Rouillard, A. D., Schürer, S., Sheils, T. & 10 others, Simeonov, A., Sklar, L. A., Southall, N., Ursu, O., Vidovic, D., Waller, A., Yang, J., Jadhav, A., Oprea, T. I. & Guha, R., Jan 2017, In: Nucleic Acids Research. 45, D1, p. D995–D1002

    Research output: Contribution to journal › Journal article › Research › peer-review

  34. Published

    An atlas of genetic determinants of forearm fracture

    Nethander, M., Movérare-Skrtic, S., Kämpe, A., Coward, E., Reimann, E., Grahnemo, L., Borbély, É., Helyes, Z., Funck-Brentano, T., Cohen-Solal, M., Tuukkanen, J., Koskela, A., Wu, J., Li, L., Lu, T., Gabrielsen, M. E., Mägi, R., Hoff, M., Lerner, U. H., Henning, P. & 15 others, Ullum, H., Erikstrup, C., Brunak, Søren, Langhammer, A., Tuomi, T., Oddsson, A., Stefansson, K., Pettersson-Kymmer, U., Ostrowski, Sisse Rye, Pedersen, Ole Birger Vesterager, Styrkarsdottir, U., Mäkitie, O., Hveem, K., Richards, J. B. & Ohlsson, C., 2023, In: Nature Genetics. 55, 11, p. 1820-1830 11 p.

    Research output: Contribution to journal › Journal article › Research › peer-review

  35. Published

    Population-wide analysis of hospital laboratory tests to assess seasonal variation and temporal reference interval modification

    Muse, V. P., Aguayo-Orozco, A., Balaganeshan, Sedrah Butt & Brunak, Søren, 2023, In: Patterns. 4, 8, 14 p., 100778.

    Research output: Contribution to journal › Journal article › Research › peer-review

  36. Published

    Seasonally adjusted laboratory reference intervals to improve the performance of machine learning models for classification of cardiovascular diseases

    Muse, V. P., Placido, Davide, Haue, Amalie Dahl & Brunak, Søren, 2024, In: BMC Medical Informatics and Decision Making. 24, 62.

    Research output: Contribution to journal › Journal article › Research › peer-review

  37. Published

    Protocol for EHR laboratory data preprocessing and seasonal adjustment using R and RStudio

    Muse, V. P. & Brunak, Søren, 2024, In: STAR Protocols. 5, 1, 11 p., 102912.

    Research output: Contribution to journal › Journal article › Research › peer-review

  38. Published

    Targeted serum proteomics of longitudinal samples from newly diagnosed youth with type 1 diabetes distinguishes markers of disease and C-peptide trajectory

    Moulder, R., Välikangas, T., Hirvonen, M. K., Suomi, T., Brorsson, C. A., Lietzén, N., Bruggraber, S. F. A., Overbergh, L., Dunger, D. B., Peakman, M., Chmura, Piotr Jaroslaw, Brunak, Søren, Schulte, A. M., Mathieu, C., Knip, M., Elo, L. L., Lahesmaa, R. & on behalf of the INNODIA consortium, O. B. O. T. I. C., 2023, In: Diabetologia. 66, p. 1983-1996

    Research output: Contribution to journal › Journal article › Research › peer-review

  39. Published

    Genetic prediction of 33 blood group phenotypes using an existing genotype dataset

    Moslemi, C., Sækmose, S. G., Larsen, R., Bay, J. T., Brodersen, T., Didriksen, M., Hjalgrim, H., Banasik, K., Nielsen, K. R., Bruun, M. T., Dowsett, J., Dinh, K. M., Mikkelsen, S., Mikkelsen, C., Hansen, T. F., Ullum, H., Erikstrup, C., Brunak, S., Krogfelt, K. A., Storry, J. R. & 3 others, Ostrowski, Sisse Rye, Olsson, M. L. & Pedersen, Ole Birger Vesterager, 2023, In: Transfusion. 63, 12, p. 2297-2310 14 p.

    Research output: Contribution to journal › Journal article › Research › peer-review

  40. Published

    Identifying Sepsis Phenotypes

    Moseley, P. L. & Brunak, Søren, 2019, In: J A M A: The Journal of the American Medical Association. 322, 14, p. 1416-1417 2 p.

    Research output: Contribution to journal › Comment/debate › Research

  41. Published

    Reply to: Immortal time bias in the analysis of drug prescription trajectories

    Mortensen, Laust Hvas & Brunak, Søren, 2022, In: npj Digital Medicine. 5, 1, 1 p., 191.

    Research output: Contribution to journal › Comment/debate › Research › peer-review

  42. Published

    Metabolite ratios as potential biomarkers for type 2 diabetes: a DIRECT study

    Molnos, S., Wahl, S., Haid, M., Eekhoff, E. M. W., Pool, R., Floegel, A., Deelen, J., Much, D., Prehn, C., Breier, M., Draisma, H. H., van Leeuwen, N., Simonis-Bik, A. M. C., Jonsson, A., Willemsen, G., Bernigau, W., Wang-Sattler, R., Suhre, K., Peters, A., Thorand, B. & 24 others, Herder, C., Rathmann, W., Roden, M., Gieger, C., Kramer, M. H. H., van Heemst, D., Pedersen, H. K., Gudmundsdottir, V., Schulze, M. B., Pischon, T., de Geus, E. J. C., Boeing, H., Boomsma, D. I., Ziegler, A. G., Slagboom, P. E., Hummel, S., Beekman, M., Grallert, H., Brunak, Søren, McCarthy, M. I., Gupta, R., Pearson, E. R., Adamski, J. & 't Hart, L. M., 2018, In: Diabetologia. 61, 1, p. 117-129 13 p.

    Research output: Contribution to journal › Journal article › Research › peer-review

  43. Published

    Propionibacterium acnes: disease-causing agent or common contaminant? Detection in diverse patient samples by next-generation sequencing

    Mollerup, S., Friis-Nielsen, J., Vinner, Lasse, Hansen, T. A., Richter, S. R., Fridholm, E. M. H., Herrera, J. A. R., Lund, O., Brunak, Søren, Izarzugaza, J. M. G., Mourier, T., Nielsen, L. P. & Hansen, Anders Johannes, 2016, In: Journal of Clinical Microbiology. 54, 4, p. 980-987 8 p.

    Research output: Contribution to journal › Journal article › Research › peer-review

  44. Published

    Cutavirus in cutaneous malignant melanoma

    Mollerup, S., Fridholm, E. M. H., Vinner, Lasse, Kjartansdóttir, K. R., Friis-Nielsen, J., Asplund, M., Romero, J. A. H., Steiniche, T., Mourier, T., Brunak, Søren, Willerslev, Eske, Izarzugaza, J. M. G., Hansen, Anders Johannes & Nielsen, L. P., Feb 2017, In: Emerging Infectious Diseases . 23, 2, p. 363-365 3 p.

    Research output: Contribution to journal › Letter › Research › peer-review

  45. Published

    High-Throughput Sequencing-Based Investigation of Viruses in Human Cancers by Multienrichment Approach

    Mollerup, S., Asplund, M., Friis-Nielsen, J., Kjartansdóttir, K. R., Fridholm, H., Hansen, T. A., Herrera, J. A. R., Barnes, C. J., Jensen, R. H., Richter, S. R., Nielsen, I. B., Pietroni, C., Alquezar-Planas, D. E., Rey-Iglesia, A., Olsen, P. V. S., Rajpert-De Meyts, E., Groth-Pedersen, L., von Buchwald, C., Jensen, D. H., Gniadecki, R. & 20 others, Høgdall, Estrid Vilma Solyom, Langhoff, J. L., Pete, I., Vereczkey, I., Baranyai, Z., Dybkaer, K., Johnsen, H. E., Steiniche, T., Hokland, P., Rosenberg, Jacob, Baandrup, U., Sicheritz-Pontén, Thomas, Willerslev, Eske, Brunak, Søren, Lund, O., Mourier, T., Vinner, Lasse, Izarzugaza, J. M. G., Nielsen, L. P. & Hansen, Anders Johannes, 15 Oct 2019, In: The Journal of Infectious Diseases. 220, 8, p. 1312-1324

    Research output: Contribution to journal › Journal article › Research › peer-review

  46. Published

    ARDD 2020: from aging mechanisms to interventions

    Mkrtchyan, G. V., Abdelmohsen, K., Andreux, P., Bagdonaite, I., Barzilai, N., Brunak, S., Cabreiro, F., Cabo, R. D., Campisi, J., Cuervo, A. M., Demaria, M., Ewald, C. Y., Fang, E. F., Faragher, R., Ferrucci, L., Freund, A., Silva-García, C. G., Georgievskaya, A., Gladyshev, V. N., Glass, D. J. & 46 others, Gorbunova, V., Grey, A. D., He, W. W., Hoeijmakers, J., Hoffmann, Eva, Horvath, S., Houtkooper, R. H., Jensen, Majken Karoline, Jensen, M. B., Kane, A., Kassem, Moustapha Saad El-Deen, Keizer, P. D., Kennedy, B., Karsenty, G., Lamming, D. W., Lee, K. F., MacAulay, Nanna, Mamoshina, P., Mellon, J., Molenaars, M., Moskalev, A., Mund, Andreas, Niedernhofer, L., Osborne, Brenna, Pak, H. H., Parkhitko, A., Raimundo, N., Rando, T. A., Rasmussen, Lene Juel, Reis, C., Riedel, C. G., Franco-Romero, A., Schumacher, B., Sinclair, D. A., Suh, Y., Taub, P. R., Toiber, D., Treebak, Jonas Thue, Valenzano, D. R., Verdin, E., Vijg, J., Young, S., Zhang, L., Bakula, Daniela Janina, Zhavoronkov, A. & Scheibye-Knudsen, Morten, 2020, In: Aging. 12, 24, p. 24486-24503 18 p.

    Research output: Contribution to journal › Journal article › Research › peer-review

  47. Published

    Linear motif atlas for phosphorylation-dependent signaling

    Miller, M. L., Jensen, L. J., Diella, F., Jørgensen, C., Tinti, M., Li, L., Hsiung, M., Parker, S. A., Bordeaux, J., Sicheritz-Ponten, T., Olhovsky, M., Pasculescu, A., Alexander, J., Knapp, S., Blom, N., Bork, P., Li, S., Cesareni, G., Pawson, T., Turk, B. E. & 3 others, Yaffe, M. B., Brunak, Søren & Linding, R., 2008, In: Science Signaling. 1, 35, p. ra2

    Research output: Contribution to journal › Journal article › Research › peer-review

  48. Published

    Benchmarking the HLA typing performance of Polysolver and Optitype in 50 Danish parental trios

    Matey-Hernandez, M. L., Danish Pan Genome Consortium, D. P. G. C., Brunak, Søren, Izarzugaza, J. M. G., Sørensen, L. M., Petersen, Bent, Sibbesen, Jonas Andreas, Liu, S., Belling, K. G., Have, C. T., Bork-Jensen, J., Sun, J., Hansen, Torben, Krogh, Anders, Sørensen, Thorkild I.A., Pedersen, Oluf Borbye, Wang, J., Eiberg, Hans Rudolf Lytchoff & Kristiansen, Karsten, 2018, In: BMC Bioinformatics. 19, p. 1-12 239.

    Research output: Contribution to journal › Journal article › Research › peer-review

  49. Published

    A genomic history of aboriginal Australia

    Malaspinas, A. S., Westaway, M. C., Muller, C. E., Sousa, V. C., Lao, O., Alves, I., Bergström, A., Athanasiadis, G., Cheng, J. Y., Crawford, J. E., Heupink, T. H., Macholdt, E., Peischl, S., Rasmussen, S., Schiffels, S., Subramanian, S., Wright, J. L., Albrechtsen, A., Barbieri, C., Dupanloup, I. & 55 others, Eriksson, A., Margaryan, Ashot, Moltke, Ida, Pugach, I., Korneliussen, Thorfinn Sand, Levkivskyi, I. P., Moreno Mayar, J. Víctor, Ni, S., Racimo, F., Sikora, Martin, Xue, Y., Aghakhanian, F. A., Brucato, N., Brunak, Søren, Campos, P., Clark, W., Ellingvåg, S., Fourmile, G., Gerbault, P., Injie, D., Koki, G., Leavesley, M., Logan, B., Lynch, A., Matisoo-Smith, E. A., McAllister, P. J., Mentzer, A. J., Metspalu, M., Migliano, A. B., Murgha, L., Phipps, M. E., Pomat, W., Reynolds, D., Ricaut, F., Siba, P., Thomas, M. G., Wales, T., Wall, C. M., Oppenheimer, S. J., Tyler-Smith, C., Durbin, R., Dortch, J., Manica, A., Schierup, M. H., Foley, R. A., Lahr, M. M., Bowern, C., Wall, J. D., Mailund, T., Stoneking, M., Nielsen, Rasmus, Sandhu, M. S., Excoffier, L., Lambert, D. M. & Willerslev, Eske, 2016, In: Nature. 538, 7624, p. 207-214 8 p.

    Research output: Contribution to journal › Journal article › Research › peer-review

  50. Published

    Question Answering for Health Professionals and Laypersons

    Maegaard, Bente, Hahn, U., Brunak, Søren, Schulz, S., Andersen, U. & Welter, S., 2013, MEDINFO 2013. Lehmann et al., C. U. (ed.). København: IMIA and IOS Press

    Research output: Chapter in Book/Report/Conference proceeding › Article in proceedings › Research › peer-review

  51. Published

    BALDR: A Web-based platform for informed comparison and prioritization of biomarker candidates for type 2 diabetes mellitus

    Lundgaard, Agnete Troen, Burdet, F., Siggaard, T., Westergaard, David, Vagiaki, D., Cantwell, Lisa, Röder, T., Vistisen, D., Sparsø, T., Giordano, G. N., Ibberson, M., Banasik, Karina & Brunak, Søren, 2023, In: PLOS Computational Biology. 19, 8, 13 p., e1011403.

    Research output: Contribution to journal › Journal article › Research › peer-review

  52. Modeling the adaptive immune system: predictions and simulations

    Lundegaard, C., Lund, O., Kesmir, C., Brunak, Søren & Nielsen, M., 2007, In: Bioinformatics (Online). 23, 24, p. 3265-75 11 p.

    Research output: Contribution to journal › Journal article › Research › peer-review

  53. Published

    Annotation of loci from genome-wide association studies using tissue-specific quantitative interaction proteomics

    Lundby, A., Rossin, E. J., Steffensen, A. B., Acha, M. R., Newton-Cheh, C., Pfeufer, A., Lynch, S. N., Olesen, S-P., Brunak, S., Ellinor, P. T., Jukema, J. W., Trompet, S., Ford, I., Macfarlane, P. W., Krijthe, B. P., Hofman, A., Uitterlinden, A. G., Stricker, B. H., Nathoe, H. M., Spiering, W. & 8 others, Daly, M. J., Asselbergs, F. W., van der Harst, P., Milan, D. J., de Bakker, P. I. W., Hansen, K. L., Olsen, Jesper Velgaard & The QT Interval International GWAS Consortium (QT-IGC), T. Q. I. I. G. C. (., 22 Jun 2014, In: Nature Methods. 11, 8, p. 868-874 12 p.

    Research output: Contribution to journal › Journal article › Research › peer-review

  54. Published

    Comparison of global gene expression profiles of microdissected human foetal Leydig cells with their normal and hyperplastic adult equivalents

    Lottrup, G., Belling, K., Leffers, H., Nielsen, J. E., Dalgaard, M. D., Juul, Anders, Skakkebæk, Niels Erik, Brunak, Søren & Meyts, E. R., 1 May 2017, In: Molecular Human Reproduction. 23, 5, p. 339-354 16 p.

    Research output: Contribution to journal › Journal article › Research › peer-review

  55. Published

    A scored human protein-protein interaction network to catalyze genomic interpretation

    Li, T., Wernersson, R., Hansen, R. B., Horn, H., Mercer, J., Slodkowicz, G., Workman, C. T., Rigina, O., Rapacki, K., Stærfeldt, H. H., Brunak, Søren, Jensen, T. S. & Hansen, K. L., Jan 2017, In: Nature Methods. 14, 1, p. 61–64

    Research output: Contribution to journal › Letter › Research › peer-review

  56. Consistent metagenes from cancer expression profiles yield agent specific predictors of chemotherapy response

    Li, Q., Eklund, A. C., Birkbak, N. J., Desmedt, C., Haibe-Kains, B., Sotiriou, C., Symmans, W. F., Pusztai, L., Brunak, Søren, Richardson, A. L. & Szallasi, Z. I., 2011, In: B M C Bioinformatics. 12, p. 310

    Research output: Contribution to journal › Journal article › Research › peer-review

  57. Published

    hERG classification model based on a combination of support vector machine method and GRIND descriptors

    Li, Q., Jørgensen, Flemming Steen, Oprea, T., Brunak, Søren & Taboureau, O., 2012, In: Molecular Pharmaceutics. 5, 1, p. 117-127 11 p.

    Research output: Contribution to journal › Journal article › Research › peer-review

  58. Published

    Sex differences in oncogenic mutational processes

    Li, C. H., Prokopec, S. D., Sun, R. X., Yousif, F., Schmitz, N., Boutros, P. C., PCAWG Tumour Subtypes and Clinical Translation, P. T. S. A. C. T. & Brunak, Søren, 2020, In: Nature Communications. 11, 1, 24 p., 4330.

    Research output: Contribution to journal › Journal article › Research › peer-review

  59. Published

    Established risk loci for systemic lupus erythematosus at NCF2, STAT4, TNPO3, IRF5 and ITGAM associate with distinct clinical manifestations: A Danish genome-wide association study

    DBDS Genomic Consortium, D. G. C., 2022, In: Joint Bone Spine. 89, 4, 105357.

    Research output: Contribution to journal › Comment/debate › Research › peer-review

  60. Published

    Drug dosage modifications in 24 million in-patient prescriptions covering eight years: A Danish population-wide study of polypharmacy

    Leal Rodríguez, C., Haue, Amalie Dahl, Mazzoni, G., Eriksson, R., Hernansanz Biel, J., Cantwell, Lisa, Westergaard, David, Belling, K. G. & Brunak, Søren, 2023, In: PLOS Digital Health. 2, 9, 27 p., e0000336.

    Research output: Contribution to journal › Journal article › Research › peer-review

  61. Published

    Cohort profile: Copenhagen Hospital Biobank - Cardiovascular Disease Cohort (CHB-CVDC): Construction of a large-scale genetic cohort to facilitate a better understanding of heart diseases

    Laursen, I. H., Banasik, K., Haue, A. D., Petersen, O., Holm, P. C., Westergaard, D., Bundgaard, H., Brunak, S., Frikke-Schmidt, R., Holm, H., Sørensen, E., Thorner, L. W., Larsen, M. A. H., Schwinn, M., Køber, L., Torp-Pedersen, C., Ostrowski, S. R., Erikstrup, C., Nyegaard, M., Stefansson, H. & 11 others, Gylfason, A., Zink, F., Walters, G. B., Oddsson, A., Thorleifsson, G., Masson, G., Thorsteinsdottir, U., Gudbjartsson, D., Pedersen, Ole Birger Vesterager, Stefansson, K. & Ullum, H., 2021, In: BMJ Open. 11, 12, 9 p.

    Research output: Contribution to journal › Journal article › Research › peer-review

  62. Published

    Incorporating symptom data in longitudinal disease trajectories for more detailed patient stratification

    Lademann, M., Lademann, M., Boeck Jensen, A. & Brunak, Søren, 2019, In: International Journal of Medical Informatics. 129, p. 107-113 7 p.

    Research output: Contribution to journal › Journal article › Research › peer-review

  63. Published

    Compass: A hybrid method for clinical and biobank data mining

    Krysiak-Baltyn, K., Nordahl Petersen, T., Audouze, K. M. L., Jørgensen, N., Ängquist, Lars & Brunak, Søren, Feb 2014, In: Journal of Biomedical Informatics. 47, p. 160-170

    Research output: Contribution to journal › Journal article › Research › peer-review

  64. Published

    Association between chemical pattern in breast milk and congenital cryptorchidism: modelling of complex human exposures

    Krysiak-Baltyn, K., Toppari, J., Skakkebæk, Niels Erik, Jensen, T. S., Virtanen, H. E., Schramm, K., Shen, H., Vartiainen, T., Kiviranta, H., Taboureau, O., Audouze, K. M. L., Brunak, Søren & Main, Katharina Maria, 2012, In: International Journal of Andrology. 35, 3, p. 294-302 9 p.

    Research output: Contribution to journal › Journal article › Research › peer-review

  65. Published

    Country-specific chemical signatures of persistent environmental compounds in breast milk

    Krysiak-Baltyn, K., Toppari, J., Skakkebaek, N. E., Jensen, T. S., Virtanen, H. E., Schramm, K-W., Shen, H., Vartiainen, T., Kiviranta, H., Taboureau, O., Brunak, S., Main, K. M., Krysiak-Baltyn, K., Toppari, J., Skakkebaek, N. E., Jensen, T. S., Virtanen, H. E., Schramm, K-W., Shen, H., Vartiainen, T. & 4 others, Kiviranta, H., Taboureau, O., Brunak, S. & Main, Katharina Maria, 1 Apr 2010, In: International Journal of Andrology. 33, 2, p. 270-8 9 p.

    Research output: Contribution to journal › Journal article › Research › peer-review

  66. Published

    Ibuprofen alters human testicular physiology to produce a state of compensated hypogonadism

    Kristensen, D. M., Desdoits-Lethimonier, C., Mackey, Abigail, Dalgaard, M. D., De Masi, F., Munkbøl, C. H., Styrishave, Bjarne, Antignac, J., Le Bizec, B., Platel, C., Hay-Schmidt, Anders, Jensen, T. K., Lesné, L., Mazaud-Guittot, S., Kristiansen, Karsten, Brunak, Søren, Kjær, Michael, Juul, Anders & Jégou, B., 2018, In: Proceedings of the National Academy of Sciences of the United States of America. 115, 4, p. e715-e724 10 p.

    Research output: Contribution to journal › Journal article › Research › peer-review

  67. Published

    Intrauterine exposure to mild analgesics is a risk factor for development of male reproductive disorders in human and rat

    Kristensen, D. M., Hass, U., Lesné, L., Lottrup, G., Jacobsen, P. R., Desdoits-Lethimonier, C., Boberg, J., Petersen, Jørgen Holm, Toppari, J., Jensen, T. K., Brunak, Søren, Skakkebæk, Niels Erik, Nellemann, C., Main, Katharina Maria, Jégou, B. & Leffers, H., 2011, In: Human Reproduction. 26, 1, p. 235-44 10 p.

    Research output: Contribution to journal › Journal article › Research › peer-review

  68. Published

    Many putative endocrine disruptors inhibit prostaglandin synthesis

    Kristensen, D. M., Skalkam, M. L., Audouze, K. M. L., Lesné, L., Desdoits-Lethimonier, C., Frederiksen, H., Brunak, Søren, Skakkebæk, Niels Erik, Jégou, B., Hansen, Jacob B., Junker, S. & Leffers, H., 1 Apr 2011, In: Environmental Health Perspectives. 119, 4, p. 534-41 8 p.

    Research output: Contribution to journal › Journal article › Research › peer-review

  69. Published

    OCT4 and downstream factors are expressed in human somatic urogenital epithelia and in culture of epididymal spheres

    Kristensen, D. M., Nielsen, J. E., Kalisz, M., Dalgaard, M. D., Audouze, K., Larsen, M. E., Jacobsen, G. K., Horn, T., Brunak, S., Skakkebaek, N. E., Leffers, H., Kristensen, D. M., Nielsen, J. E., Kalisz, M., Dalgaard, M. D., Audouze, K. M. L., Larsen, M. E., Jacobsen, G. K., Horn, T., Brunak, S. & 2 others, Skakkebæk, Niels Erik & Leffers, H., 1 Nov 2010, In: Molecular Human Reproduction. 16, 11, p. 835-45 11 p.

    Research output: Contribution to journal › Journal article › Research › peer-review

  70. Published

    ChemProt-3.0: a global chemical biology diseases mapping

    Kringelum, J. V., Kjærulff, S. K., Brunak, Søren, Lund, O., Oprea, T. I. & Taboureau, O. T., 2016, In: Database: The Journal of Biological Databases and Curation. 2016, 7 p., bav123.

    Research output: Contribution to journal › Journal article › Research › peer-review

  71. Published

    Facilitating the use of large-scale biological data and tools in the era of translational bioinformatics

    Kouskoumvekaki, I., Shublaq, N. & Brunak, Søren, 1 Aug 2013, In: Briefings in Bioinformatics. 11 p.

    Research output: Contribution to journal › Journal article › Research › peer-review

  72. Published

    Chance of live birth: a nationwide, registry-based cohort study

    Kolte, A. M., Westergaard, David, Lidegaard, Øjvind, Brunak, Søren & Nielsen, Henriette Svarre, 2021, In: Human Reproduction. 36, 4, p. 1065-1073 9 p.

    Research output: Contribution to journal › Journal article › Research › peer-review

  73. Published

    The impact of early pregnancy complications on completed family size—A nationwide, registry-based cohort study with 40 years of data

    Kolte, A. M., Westergaard, David, Lidegaard, Øjvind, Brunak, Søren & Nielsen, Henriette Svarre, 2021, In: Acta Obstetricia et Gynecologica Scandinavica. 100, 12, p. 2226-2233

    Research output: Contribution to journal › Journal article › Research › peer-review

  74. Published

    Pregnancy outcomes and lifetime fecundity - a nationwide, registry-based cohort study

    Kolte, A. M., Westergaard, David, Lidegaard, Øjvind, Brunak, Søren & Nielsen, Henriette Svarre, 2020, In: Human Reproduction. 35, Suppl. 1, p. i40 1 p.

    Research output: Contribution to journal › Conference abstract in journal › Research

  75. Published

    Discovery of biomarkers for glycaemic deterioration before and after the onset of type 2 diabetes: rationale and design of the epidemiological studies within the IMI DIRECT Consortium: Diabetologia

    Koivula, R., Heggie, A., Barnett, A., Cederberg, H., Hansen, T. H., Koopman, A., Ridderstråle, M., Rutters, F., Vestergaard, H., Gupta, R., Herrgård, S., Heymans, M., Perry, M., Rauh, S., Siloaho, M., Teare, H. A., Thorand, B., Bell, J., Brunak, S., Frost, G. & 13 others, Jablonka, B., Mari, A., McDonald, T., Dekker, J., Hansen, Torben, Hattersley, A., Laakso, M., Pedersen, Oluf Borbye, Koivisto, V., Ruetten, H., Walker, M., Pearson, E. & Franks, P., 2014, In: Diabetologia. 57, 6, p. 1-11 11 p.

    Research output: Contribution to journal › Journal article › Research › peer-review

  76. Published

    The role of physical activity in metabolic homeostasis before and after the onset of type 2 diabetes: an IMI DIRECT study

    Koivula, R. W., Atabaki-Pasdar, N., Giordano, G. N., White, T., Adamski, J., Bell, J. D., Beulens, J., Brage, S., Brunak, S., De Masi, F., Dermitzakis, E. T., Forgie, I. M., Frost, G., Hansen, T., Hansen, T. H., Hattersley, A., Kokkola, T., Kurbasic, A., Laakso, M., Mari, A. & 15 others, McDonald, T. J., Pedersen, Oluf Borbye, Rutters, F., Schwenk, J. M., Teare, H. J. A., Thomas, E. L., Vinuela, A., Mahajan, A., McCarthy, M. I., Ruetten, H., Walker, M., Pearson, E., Pavo, I., Franks, P. W. & IMI-DIRECT consortium, I. C., 2020, In: Diabetologia. 63, 4, p. 744-756 13 p.

    Research output: Contribution to journal › Journal article › Research › peer-review

  77. Published

    Discovery of biomarkers for glycaemic deterioration before and after the onset of type 2 diabetes: descriptive characteristics of the epidemiological studies within the IMI DIRECT Consortium

    Koivula, R. W., Forgie, I. M., Kurbasic, A., Viñuela, A., Heggie, A., Giordano, G. N., Hansen, T. H., Hudson, M., Koopman, A. D. M., Rutters, F., Siloaho, M., Allin, K. H., Brage, S., Brorsson, C. A., Dawed, A. Y., De Masi, F., Groves, C. J., Kokkola, T., Mahajan, A., Perry, M. H. & 31 others, Rauh, S. P., Ridderstråle, M., Teare, H. J. A., Thomas, E. L., Tura, A., drb459, drb459, White, T., Adamski, J., Bell, J. D., Beulens, J. W., Brunak, Søren, Dermitzakis, E. T., Froguel, P., Frost, G., Gupta, R., Hansen, Torben, Hattersley, A., Jablonka, B., Kaye, J., Laakso, M., McDonald, T. J., Pedersen, Oluf Borbye, Schwenk, J. M., Pavo, I., Mari, A., McCarthy, M. I., Ruetten, H., Walker, M., Pearson, E., Franks, P. W. & IMI-DIRECT consortium, I. C., 2019, In: Diabetologia. 62, 9, p. 1601-1615

    Research output: Contribution to journal › Journal article › Research › peer-review

  78. Published

    Migraine polygenic risk score associates with efficacy of migraine-specific drugs

    Kogelman, L. J. A., Esserlind, A-L., Christensen, A. F., Awasthi, S., Ripke, S., Ingason, A., Davidsson, O. B., Erikstrup, C., Hjalgrim, H., Ullum, H., Olesen, J., Hansen, T. F., Gudbjartsson, D., Gastafsson, O., Stefansson, K., Stefansson, H., Porsteinsdottir, U., Andersen, S., Banasik, K., Brunak, S. & 73 others, Buil, A., Burgdorf, K., Gregor, J., Jennum, Poul, Nielsen, K. R., Nyegaard, M., Paarup, H. M., Pedersen, O. B., Sørensen, E., Werge, Thomas, Anttila, V., Artto, V., Belin, A. C., de Boer, I., Boomsma, D. I., Borte, S., Chasman, D. I., Cherkas, L., Cormand, B., Cuenca-Leon, E., Davey-Smith, G., Dichgans, M., van Duijn, C., Esko, T., Ferrari, M., Frants, R. R., Freilinger, T., Furlotte, N., Gormley, P., Griffiths, L., Hamalainen, E., Hiekkala, M., Ikram, M. A., Jarvelin, M., Kajanne, R., Kallela, M., Kaprio, J., Kaunisto, M., Kubisch, C., Kurki, M., Kurth, T., Launer, L., Lehtimaki, T., Lessel, D., Ligthart, L., Litterman, N., van den Maagdenberg, A., Macaya, A., Malik, R., Mangino, M., McMahon, G., Muller-Myhsok, B., Neale, B. M., Northover, C., Nyholt, D. R., Palotie, A., Palta, P., Pedersen, L., Pedersen, N., Posthuma, D., Pozo-Rosich, P., Pressman, A., Raitakari, O., Schurks, M., Sintas, C., Steinberg, S., Strachan, D., Terwindt, G., Vila-Pueyo, M., Wessman, M., Winsvold, B. S., Zhao, H. & Zwart, J., 2019, In: Neurology: Genetics. 5, 6, 12 p., e364.

    Research output: Contribution to journal › Journal article › Research › peer-review

  79. Published

    Disease Trajectories for Hidradenitis Suppurativa in the Danish Population

    Andersen, Rune Kjærsgaard, Jørgensen, Isabella Friis, Reguant, R., Jemec, Gregor & Brunak, Søren, 2020, In: JAMA Dermatology. 156, 7, p. 780-786

    Research output: Contribution to journal › Journal article › Research › peer-review

  80. Published

    Lifestyle and demographic associations with 47 inflammatory and vascular stress biomarkers in 9876 blood donors

    Kjerulff, B., Dowsett, J., Jacobsen, R. L., Gladov, J., Larsen, M. H., Lundgaard, A. T., Banasik, K., Westergaard, D., Mikkelsen, S., Dinh, K. M., Hindhede, L., Kaspersen, K. A., Schwinn, M., Juul, A., Poulsen, B., Lindegaard, B., Pedersen, C. B., Sabel, C. E., Bundgaard, H., Nielsen, H. S. & 30 others, Møller, J. A., Boldsen, J. K., Burgdorf, Kristoffer Sølvsten, Kessing, Lars Vedel, Handgaard, L. J., Thørner, L. W., Didriksen, Maria, Nyegaard, Mette, Grarup, Niels, Ødum, Niels, Johansson, P. I., Jennum, Poul, Frikke-Schmidt, Ruth, Berger, S. S., Brunak, Søren, Jacobsen, Søren, Hansen, Thomas Folkmann, Lundquist, T. K., Hansen, Torben, Sørensen, Torben Lykke, Sigsgaard, T., Nielsen, K. R., Bruun, M. T., Hjalgrim, Henrik, Ullum, H., Rostgaard, K., Sørensen, E., Pedersen, Ole Birger Vesterager, Ostrowski, Sisse Rye & Erikstrup, C., 2024, In: Communications Medicine. 4, 15 p., 50.

    Research output: Contribution to journal › Journal article › Research › peer-review

  81. Published

    The impact of the protein interactome on the syntenic structure of mammalian genomes

    Kirk, I. K., Weinhold, N., Brunak, Søren & Belling, K., 2017, In: PLOS ONE. 12, 9, 14 p., e0179112.

    Research output: Contribution to journal › Journal article › Research › peer-review

  82. Published

    Chromosome-wise Protein Interaction Patterns and Their Impact on Functional Implications of Large-Scale Genomic Aberrations

    Kirk, I. K., Weinhold, N., Belling, K., Skakkebæk, Niels Erik, Jensen, T. S., Leffers, H., Juul, Anders & Brunak, Søren, 22 Mar 2017, In: Cell Systems. 4, 3, 11 p., 357-364.e3.

    Research output: Contribution to journal › Journal article › Research › peer-review

  83. Published

    Linking glycemic dysregulation in diabetes to symptoms, comorbidities, and genetics through EHR data mining

    Kirk, I. K., Simon, C., Banasik, K., Holm, P. C., Haue, A. D., Jensen, P. B., Jensen, L. J., Rodriguez, C. L., Pedersen, M. K., Eriksson, R., Andersen, H. U., Almdal, T., Bork-Jensen, J., Grarup, N., Borch-Johnsen, K., Pedersen, O., Pociot, F., Hansen, T., Bergholdt, R., Rossing, P. & 1 others, Brunak, Søren, 2019, In: eLife. 8, 19 p., e44941.

    Research output: Contribution to journal › Journal article › Research › peer-review

  84. ChemProt-2.0: visual navigation in a disease chemical biology database

    Kim Kjærulff, S., Wich, L., Kringelum, J., Jacobsen, U. P., Kouskoumvekaki, I., Audouze, K., Lund, O., Brunak, Søren, Oprea, T. I. & Taboureau, O., Jan 2013, In: Nucleic Acids Research. 41, Database issue, p. D464-9

    Research output: Contribution to journal › Journal article › Research

  85. Published

    Artificial Intelligence and Early Detection of Pancreatic Cancer: 2020 Summative Review

    Kenner, B., Chari, S. T., Kelsen, D., Klimstra, D. S., Pandol, S. J., Rosenthal, M., Rustgi, A. K., Taylor, J. A., Yala, A., Abul-Husn, N., Andersen, D. K., Bernstein, D., Brunak, S., Canto, M. I., Eldar, Y. C., Fishman, E. K., Fleshman, J., Go, V. L. W., Holt, J. M., Field, B. & 14 others, Goldberg, A., Hoos, W., Iacobuzio-Donahue, C., Li, D., Lidgard, G., Maitra, A., Matrisian, L. M., Poblete, S., Rothschild, L., Sander, C., Schwartz, L. H., Shalit, U., Srivastava, S. & Wolpin, B., 2021, In: Pancreas. 50, 3, p. 251-279 29 p.

    Research output: Contribution to journal › Journal article › Research › peer-review

  86. Published

    Prediction of pancreatic fat and analysis of its determining factors using multi-omics datasets: an IMI DIRECTstudy

    Karaderi, Tugce, Mazzoni, G., Brorsson, C., Westergaard, David, Banasik, Karina, Koivula, R., Thomas, L., Bell, J., Franks, P., Pearson, E. & Brunak, Søren, 2019, In: Diabetologia. 62, p. S166-S166

    Research output: Contribution to journal › Conference abstract in journal › Research

  87. Published

    A second update on mapping the human genetic architecture of COVID-19

    Kanai, M., Andrews, S., Cordioli, M., Stevens, C., Neale, B. M., Daly, M., Ganna, A., Pathak, G. A., Ellinghaus, D., Banasik, K., Brunak, S., Pedersen, O. B., Westergaard, D., Sequeros, C. B., Nissen, J., Feldt-Rasmussen, U., Grønbæk, K., Ostrowski, S. R., Guindo-Martinez, M., Garcia, S. M. & 70 others, Hjalgrim, Henrik, Admin team lead, A. T. L., Admin team member, A. T. M., Analysis team lead, A. T. L., Analysis team member, A. T. M., Data collection lead, D. C. L., Data collection member, D. C. M., Manuscript analysis team lead, M. A. T. L., Manuscript analysis team members: Mendelian randomization, M. A. T. M. M. R., Manuscript analysis team members: methods development, M. A. T. M. M. D., Manuscript analysis team members: phenome-wide association study, M. A. T. M. P. A. S., Manuscript analysis team members: principal component projection, gene prioritization, M. A. T. M. P. C. P. G. P., Project management lead, P. M. L., Scientific communication lead, S. C. L., Scientific communication member, S. C. M., Writing group lead, W. G. L., Writing group member, W. G. M., 23andMe, 2., Adolescent brain and cognitive development study, A. B. A. C. D. S., Analysis group, A. G., Armenia_Covid-19hg, A., Assessment of the influence of clinical, functional, immunological and genetic factors on the severity of the course of coronavirus infection with SARS-CoV-2 and post-COVID syndrome, A. O. T. I. O. C. F. I. A. G. F. O. T. S. O. T. C. O. C. I. W. S. A. P. S., Avon Longitudinal Study of Parents and Children (ALSPAC), A. L. S. O. P. A. C. (., BelCovid, B., Biobanque Quebec COVID19, B. Q. C., BioVU, B., Bonn Study of COVID-19 Genetics, B. S. O. C. G., CGEn HostSeq—Canadian COVID-19 Human Host Genome Sequencing Databank, C. H. C. H. H. G. S. D., Colorado Center for Personalized Medicine—CCPM, C. C. F. P. M., COMRI/Virology Study, C. S., Covid19 Ioannina Biobank, C. I. B., COVID19-Host(a)ge, C., Covid19hg-CL, C., Danish COVID-19 Genomic Consortium, D. C. G. C., Egypt hgCOVID hub, E. H. H., EraCORE, E., FinnGen, F., French hgCOVID, F. H., GCAT. Genomes For Life, G. G. F. L., Genes & Health, G. &. H., Genetic influences on severity of COVID-19 illness in Korea, G. I. O. S. O. C. I. I. K., GenOMICC, G., Genotek COVID-19 study, G. C. S., Helix Exome+ COVID-19 Phenotypes, H. E. C. P., Host Genetic Factors for COVID-19 Severity and Outcome in Western Indian Population, H. G. F. F. C. S. A. O. I. W. I. P., Host Genetics in COVID Cohorts of Mixed ancestry from Mexico, H. G. I. C. C. O. M. A. F. M., Japan Coronavirus Taskforce, J. C. T., Japan NCGM-COVID19, J. N., Jordan COVID-19 Host Genomics Initiative (JCHGI), J. C. H. G. I. (., Leadership, L., Lung eQTL Consortium, L. E. C., Mass General Brigham—Host Vulnerability to COVID-19, M. G. B. V. T. C., MexGen-COVID, M., Pa-COVID-19, P., Project management group, P. M. G., Project management support, P. M. S., Qatar Genome Program, Q. G. P., SARS-CoV-2 and Host Genome sequencing, S. A. H. G. S., Scientific communication group, S. C. G., Search for Genomic Markers Predicting the Severity of the response to COVID-19, S. F. G. M. P. T. S. O. T. R. T. C., Spanish COalition to Unlock Research on host GEnetics on COVID-19 (SCOURGE), S. C. T. U. R. O. H. G. O. C. (., The Danish Blood Donor Study, T. D. B. D. S., The Genetic Predisposition to severe COVID-19, T. G. P. T. S. C., Tirschenreuth Study (TiKoco), T. S. (., UCLA Precision Health COVID-19 Host Genomics Biobank, U. P. H. C. H. G. B., UK Biobank, U. B., Variability in Immune Response Genes and Severity of SARS-CoV-2 Infection (INMUNGEN-CoV2 study), V. I. I. R. G. A. S. O. S. I. (. S., Website development, W. D., Writing Group, W. G. & The COVID-19 Host Genetics Initiative, T. C. H. G. I., 2023, In: Nature. 621, 7977, p. E7-E26 23 p.

    Research output: Contribution to journal › Comment/debate › Research › peer-review

  88. Published

    Using Machine Learning to Identify Patients at High Risk of Inappropriate Drug Dosing in Periods with Renal Dysfunction

    Kaas-Hansen, Benjamin Skov, Leal Rodríguez, C., Placido, Davide, Thorsen-Meyer, H., Nielsen, A. P., Dérian, N., Brunak, Søren & Andersen, Stig Ejdrup, 2022, In: Clinical Epidemiology. 14, p. 213-223 11 p.

    Research output: Contribution to journal › Journal article › Research › peer-review

  89. Published

    Language-agnostic pharmacovigilant text mining to elicit side effects from clinical notes and hospital medication records

    Kaas-Hansen, Benjamin Skov, Placido, Davide, Rodríguez, C. L., Thorsen-Meyer, H., Gentile, S., Nielsen, A. P., Brunak, Søren, Jürgens, Gesche & Andersen, Stig Ejdrup, 2022, In: Basic & clinical pharmacology & toxicology. 131, 4, p. 282-293 12 p.

    Research output: Contribution to journal › Journal article › Research › peer-review

  90. Published

    Identifying patients at high risk of inappropriate drug dosing in periods with renal dysfunction

    Kaas-Hansen, Benjamin Skov, Rodriguez, C. L., Placido, Davide, Thorsen-Meyer, H., Nielsen, A. P., Dérian, N., Brunak, Søren & Andersen, Stig Ejdrup, 2021, medRxiv.

    Research output: Working paper › Preprint › Research

  91. Published

    Language-agnostic pharmacovigilant text mining to elicit side effects from clinical notes and hospital medication records

    Kaas-Hansen, Benjamin Skov, Placido, Davide, Rodrìguez, C. L., Thorsen-Meyer, H., Gentile, S., Nielsen, A. P., Brunak, Søren, Jürgens, Gesche & Andersen, Stig Ejdrup, 2022, Authorea, (Authorea Preprints).

    Research output: Working paper › Preprint › Research

  92. Published

    Machine Learning to Identify Patients at Risk of Inappropriate Dosing for Renal Risk Medications: A Critical Comment on Kaas-Hansen et al [Response to Letter]

    Kaas-Hansen, Benjamin Skov, Leal Rodríguez, C., Placido, Davide, Thorsen-Meyer, H., Nielsen, A. P., Dérian, N., Brunak, Søren & Andersen, Stig Ejdrup, 2022, In: Clinical Epidemiology. 14, p. 765-766 2 p.

    Research output: Contribution to journal › Comment/debate › Research

  93. Published

    Eliciting drug safety signals from patient records: a language-agnostic approach

    Kaas-Hansen, Benjamin Skov, Placido, Davide, Rodriguez, C., Thorsen-Meyer, H., Gentile, S., Nielsen, A., Brunak, Søren, Jürgens, Gesche & Andersen, S., 2022, p. S15-S16. 2 p.

    Research output: Contribution to conference › Conference abstract for conference › Research › peer-review

  94. Published

    Cometin is a novel neurotrophic factor that promotes neurite outgrowth and neuroblast migration in vitro and supports survival of spiral ganglion neurons in vivo

    Jørgensen, J. R., Fransson, A., Fjord-Larsen, L., Thompson, L. H., Houchins, J. P., Andrade, N., Torp, M., Kalkkinen, N., Andersson, E., Lindvall, O., Ulfendahl, M., Brunak, Søren, Johansen, T. E. & Wahlberg, L. U., 2012, In: Experimental Neurology. 233, 1, p. 172-81 10 p.

    Research output: Contribution to journal › Journal article › Research › peer-review

  95. Published

    Age-stratified longitudinal study of Alzheimer's and vascular dementia patients

    Jørgensen, Isabella Friis, Aguayo-Orozco, A., Lademann, M. & Brunak, Søren, 2020, In: Alzheimer's & Dementia. p. 908-917

    Research output: Contribution to journal › Journal article › Research › peer-review

  96. Published

    Time-ordered comorbidity correlations identify patients at risk of mis- and overdiagnosis

    Jørgensen, Isabella Friis & Brunak, Søren, 2021, In: npj Digital Medicine. 4, 10 p., 12.

    Research output: Contribution to journal › Journal article › Research › peer-review

  97. Published

    Comorbidity landscape of the Danish patient population affected by chromosome abnormalities

    Jørgensen, Isabella Friis, Russo, F., Jensen, A. B., Westergaard, David, Lademann, M., Hjaltelin, Jessica Xin, Brunak, Søren & Belling, K., 2019, In: Genetics In Medicine. 21, 11 p.

    Research output: Contribution to journal › Journal article › Research › peer-review

  98. Published

    Stratification of Kidney Transplant Recipients Into Five Subgroups Based on Temporal Disease Trajectories

    Jørgensen, Isabella Friis, Muse, V. P., Aguayo-Orozco, A., Brunak, Søren & Sørensen, Søren Schwartz, 2024, In: Transplantation Direct. 10, 2, 11 p., e1576.

    Research output: Contribution to journal › Journal article › Research › peer-review

  99. Published

    Prediction methods and databases within chemoinformatics: emphasis on drugs and drug candidates

    Jónsdóttir, S. O., Jørgensen, Flemming Steen & Brunak, Søren, 2005, In: Bioinformatics. 21, 10, p. 2145-60 16 p.

    Research output: Contribution to journal › Journal article › Research › peer-review

  100. Published

    Precision medicine in complex diseases - Molecular subgrouping for improved prediction and treatment stratification

    Johansson, Å., Andreassen, O. A., Brunak, Søren, Franks, P. W., Hedman, H., Loos, Ruth, Meder, B., Melén, E., Wheelock, C. E. & Jacobsson, B., 2023, In: Journal of Internal Medicine. 294, 4, p. 378-396 19 p.

    Research output: Contribution to journal › Review › Research › peer-review

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