Søren Brunak

Søren Brunak

Professor

ORCID: 0000-0003-0316-5866

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  1. 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

  2. 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

  3. Published

    A Novel Familial Cardiac Arrhythmia Syndrome with Widespread ST-Segment Depression

    Bundgård, Henning, Jøns, C., Lodder, E. M., Izarzugaza, J. M. G., Romero Herrera, J. A., Pehrson, S., Tfelt-Hansen, Jacob, Ahlberg, G., Olesen, Morten Steen Salling, Holst, A. G., Wellens, H., de Villiers, C., Hastings, R., Stuart, G., Brunak, Søren, Wilde, A. A. M., Watkins, H. & Christensen, A. H., 2018, In: The New England Journal of Medicine. 379, 18, p. 1780-1781 2 p.

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

  4. Published

    A comprehensive and quantitative comparison of text-mining in 15 million full-text articles versus their corresponding abstracts

    Westergaard, David, Stærfeldt, H., Tønsberg, C., Jensen, Lars Juhl & Brunak, Søren, 2018, In: PLoS Computational Biology. 14, 2, 16 p., e1005962.

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

  5. Published

    A computational approach to chemical etiologies of diabetes

    Audouze, K. M. L., Brunak, Søren & Grandjean, P., 19 Sep 2013, In: Scientific Reports. 3, p. 2712 2712.

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

  6. 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

  7. 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

  8. Published

    A generic deep convolutional neural network framework for prediction of receptor–ligand interactions - NetPhosPan: application to kinase phosphorylation prediction

    Fenoy, E., Izarzugaza, J. M. G., Jurtz, V., Brunak, Søren & Nielsen, M., 2019, In: Bioinformatics. 35, 7, p. 1098-1107

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

  9. Published

    A genome-wide association study of men with symptoms of testicular dysgenesis syndrome and its network biology interpretation

    Dalgaard, M. D., Weinhold, N., Edsgärd, D., Silver, J. D., Pers, T. H., Nielsen, J. E., Jørgensen, N., Juul, A., Gerds, T. A., Giwercman, A., Giwercman, Y. L., Cohn-Cedermark, G., Virtanen, H. E., Toppari, J., Daugaard, G., Jensen, T. S., Brunak, S., Rajpert-De Meyts, E., Skakkebæk, N. E., Leffers, H. & 1 others, Gupta, R., 2012, In: Journal of Medical Genetics. 49, 1, p. 58-65 8 p.

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

  10. Published

    A genome-wide association study of social trust in 33,882 Danish blood donors

    Sequeros, C. B., Hansen, T. F., Westergaard, D., Louloudis, I., Kalamajski, S., Röder, T., Rohde, P. D., Schwinn, M., Clemmensen, L. H., Didriksen, M., Nyegaard, M., Hjalgrim, H., Nielsen, K. R., Bruun, M. T., Ostrowski, S. R., Erikstrup, C., Mikkelsen, S., Sørensen, E., Pedersen, O. B. V., Brunak, S. & 3 others, Banasik, Karina, Giordano, G. N. & DBDS Genomic Consortium, D. G. C., 2024, In: Scientific Reports. 14, 12 p., 1402.

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

  11. Published

    A genome-wide meta-analysis identifies 50 genetic loci associated with carpal tunnel syndrome

    Skuladottir, A. T., Bjornsdottir, G., Ferkingstad, E., Einarsson, G., Stefansdottir, L., Nawaz, M. S., Oddsson, A., Olafsdottir, T. A., Saevarsdottir, S., Walters, G. B., Magnusson, S. H., Bjornsdottir, A., Sveinsson, O. A., Vikingsson, A., Hansen, T. F., Jacobsen, R. L., Erikstrup, C., Schwinn, M., Brunak, S., Banasik, K. & 11 others, Ostrowski, Sisse Rye, Troelsen, Anders, Henkel, C., Pedersen, Ole Birger Vesterager, Jonsdottir, I., Gudbjartsson, D. F., Sulem, P., Thorgeirsson, T. E., Stefansson, H., Stefansson, K. & DBDS Genetic Consortium, D. G. C., 2022, In: Nature Communications. 13, 1, 9 p., 1598.

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

  12. Published

    A genome-wide meta-analysis yields 46 new loci associating with biomarkers of iron homeostasis

    Bell, S., Rigas, A. S., Magnusson, M. K., Ferkingstad, E., Allara, E., Bjornsdottir, G., Ramond, A., Sørensen, E., Halldorsson, G. H., Paul, D. S., Burgdorf, K. S., Eggertsson, H. P., Howson, J. M. M., Thørner, L. W., Kristmundsdottir, S., Astle, W. J., Erikstrup, C., Sigurdsson, J. K., Vuckovic, D., Dinh, K. M. & 31 others, Tragante, V., Surendran, P., Pedersen, Ole Birger Vesterager, Vidarsson, B., Jiang, T., Paarup, H. M., Onundarson, P. T., Akbari, P., Nielsen, K. R., Lund, S. H., Juliusson, K., Magnusson, M. I., Frigge, M. L., Oddsson, A., Olafsson, I., Kaptoge, S., Hjalgrim, Henrik, Runarsson, G., Wood, A. M., Hansen, Thomas Folkmann, Burgdorf, Kristoffer Sølvsten, Jemec, Gregor, Jennum, Poul, Nielsen, K. R., Petersen, M., Werge, Thomas, Westergaard, David, Banasik, Karina, Brunak, Søren, Ullum, H. & DBDS Genomic Consortium, D. G. C., 2021, In: Communications Biology . 4, 1, 14 p., 156.

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

  13. 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

  14. Published

    A human gut microbial gene catalogue established by metagenomic sequencing

    MetaHIT Consortium, M. C., 2010, In: Nature. 464, 7285, p. 59-65 6 p.

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

  15. Published

    A large-cohort, longitudinal study determines pre-cancer disease routes across different cancer types

    Hjaltelin, Jessica Xin, Helleberg, M., Jensen, A. B., Brunak, Søren & Lundgren, Jens, 2019, In: Cancer Research. 79, 4, p. 864-872

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

  16. Published

    A large-scale analysis of tissue-specific pathology and gene expression of human disease genes and complexes

    Hansen, K. L., Hansen, N. T., Karlberg, E. O., Eklund, A. C., Roque, F. S., Donahoe, P. K., Szallasi, Z., Jensen, T. S. & Brunak, Søren, 2008, In: Proceedings of the National Academy of Science of the United States of America. 105, 52, p. 20870-5 5 p.

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

  17. Published

    A nondegenerate code of deleterious variants in mendelian Loci contributes to complex disease risk

    Blair, D. R., Lyttle, C. S., Mortensen, J. M., Bearden, C. F., Jensen, A. B., Khiabanian, H., Melamed, R., Rabadan, R., Bernstam, E. V., Brunak, Søren, Jensen, Lars Juhl, Nicolae, D., Shah, N. H., Grossman, R. L., Cox, N. J., White, K. P. & Rzhetsky, A., 26 Sep 2013, In: Cell. 155, 1, p. 70-80 11 p.

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

  18. Published

    A proteomic study of the regulatory role for STAT-1 in cytokine-induced beta-cell death

    Rondas, D., Gudmundsdottir, V., D'Hertog, W., Crèvecoeur, I., Waelkens, E., Brunak, Søren, Mathieu, C. & Overbergh, L., Oct 2015, In: Proteomics - Clinical Applications. 9, 9-10, p. 938–952 15 p.

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

  19. 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

  20. 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

  21. Published

    A systematic study of site-specific GalNAc-type O-glycosylation modulating proprotein convertase processing

    Schjoldager, Katrine Ter-Borch Gram, Vester-Christensen, M. B., Goth, C. K., Petersen, T. N., Brunak, Søren, Bennett, Eric Paul, Levery, S. B. & Clausen, Henrik, 18 Nov 2011, In: Journal of Biological Chemistry. 286, 46, p. 40122-32 11 p.

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

  22. 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

  23. 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

  24. Published

    Abnormal serum levels of magnesium, phosphate, and zinc in ICU patients—Characteristics, management, and outcomes: The WhyTrace cohort study

    Vesterlund, G. K., Thorsen-Meyer, H. C., Møller, Morten Hylander, Brunak, Søren, Strøm, T., Perner, Anders & Kaas-Hansen, Benjamin Skov, 2023, In: Acta Anaesthesiologica Scandinavica. 67, 7, p. 925-935 11 p.

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

  25. Published

    Accurate genotyping across variant classes and lengths using variant graphs

    Sibbesen, Jonas Andreas, Maretty, L., Krogh, Anders, Petersen, Bent, Sibbesen, Jonas Andreas, Liu, S., Have, C. T., Bork-Jensen, J., Guo, X., Hansen, Torben, Krogh, Anders, Sørensen, Thorkild I.A., Pedersen, Oluf Borbye, Wang, J. & Brunak, Søren, 2018, In: Nature Genetics. 50, p. 1054-1059 6 p.

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

  26. Published

    Acute and persistent symptoms in non-hospitalized PCR-confirmed COVID-19 patients

    Bliddal, S., Banasik, Karina, Pedersen, Ole Birger Vesterager, Nissen, J., Cantwell, Lisa, Schwinn, M., Tulstrup, Morten Rytter, Westergaard, David, Ullum, H., Brunak, Søren, Tommerup, Niels, Feenstra, B., Geller, F., Ostrowski, Sisse Rye, Grønbæk, Kirsten, Nielsen, Claus Henrik, Nielsen, Susanne Dam & Feldt-Rasmussen, Ulla, 2021, In: Scientific Reports. 11, 13153.

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

  27. 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

  28. Published

    Alcoholic liver disease: A registry view on comorbidities and disease prediction

    Grissa, Dhouha, Nytoft Rasmussen, D., Krag, A., Brunak, Søren & Jensen, Lars Juhl, 2020, In: P L o S One. 16, 9, 19 p., 1008244.

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

  29. Alternative splicing in colon, bladder, and prostate cancer identified by exon array analysis

    Thorsen, K., Sørensen, K., Brems-Eskildsen, A. S., Modin, C., Gaustadnes, M., Hein, A. K., Brunak, Søren, Kruhøffer, M., Laurberg, S., Borre, M. S., Wang, K., Krainer, A. R., Tørring, N., Dyrskjøt, L., Andersen, C. & Orntoft, T. F., 2008, In: Molecular & Cellular Proteomics. 7, 7, p. 1214-24 11 p.

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

  30. Published

    An Aboriginal Australian genome reveals separate human dispersals into Asia

    Rasmussen, M., Guo, X., Wang, Y., Lohmueller, K. E., Rasmussen, S., Albrechtsen, A., Skotte, L., Lindgreen, S., Metspalu, M., Jombart, T., Kivisild, T., Zhai, W., Eriksson, A., Manica, A., Orlando, L., De La Vega, F. M., Tridico, S., Metspalu, E., Nielsen, K., Avila Arcos, M. D. C. & 38 others, Moreno Mayar, J. Víctor, Muller, C., Dortch, J., Gilbert, M Thomas P, Lund, O., Wesolowska, A., Karmin, M., Weinert, L. A., Wang, B., Li, J., Tai, S., Xiao, F., Hanihara, T., van Driem, G., Jha, A. R., Ricaut, F., de Knijff, P., Migliano, A. B., Gallego Romero, I., Kristiansen, Karsten, Lambert, D. M., Brunak, Søren, Forster, P., Brinkmann, B., Nehlich, O., Bunce, M., Richards, M., Gupta, R., Bustamante, C. D., Krogh, Anders, Foley, R. A., Lahr, M. M., Balloux, F., Sicheritz-Pontén, T., Villems, R., Nielsen, Rasmus, Wang, J. & Willerslev, Eske, 2011, In: Science. 334, 6052, p. 94-98 5 p.

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

  31. Published

    An Increase in Specialist Treatment for Onychomycosis: An Unexplained Tendency. A Retrospective Study of Patients Treated for Onychomycosis in Danish Hospitals from 1994 to 2018

    Andersen, P. L., Jørgensen, Isabella Friis, Saunte, Ditte Marie, Jemec, Gregor, Pedersen, Ole Birger Vesterager & Brunak, Søren, 2023, In: Journal of Fungi. 9, 1, 7 p., 33.

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

  32. 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

  33. Analysis and prediction of gene splice sites in four Aspergillus genomes

    Wang, K., Ussery, D. W. & Brunak, Søren, 2008, In: Fungal Genetics and Biology. 46 Suppl 1, p. S14-8

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

  34. Published

    Analysis of 62 hybrid assembled human Y chromosomes exposes rapid structural changes and high rates of gene conversion

    Skov, L., Schierup, M. H., Danish Pan Genome Consortium, D. P. G. C., Sørensen, L. M., Petersen, Bent, Sibbesen, Jonas Andreas, Liu, S., Belling, K. G., Have, C. T., Bork-Jensen, J., Hansen, Torben, Krogh, Anders, Sørensen, Thorkild I.A., Pedersen, Oluf Borbye, Rasmussen, Simon, Kristiansen, Karsten & Brunak, Søren, 2017, In: PLOS Genetics. 13, 8, p. e1006834

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

  35. Published

    Analysis of Time-Series Gene Expression Data to Explore Mechanisms of Chemical-Induced Hepatic Steatosis Toxicity

    Aguayo-Orozco, A., Bois, F. Y., Brunak, Søren & Taboureau, O., 2018, In: Frontiers in Genetics. 9, p. 1-15 396.

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

  36. Published

    Analysis of a gene panel for targeted sequencing of colorectal cancer samples

    Jensen, K. H., Izarzugaza, J. M. G., Juncker, A. S., Hansen, R. B., Hansen, T. F., Timshel, P., Blondal, T., Jensen, T. S., Rygaard-Hjalsted, E., Mouritzen, P., Thorsen, M., Wernersson, R., Nielsen, H. B., Jakobsen, A., Brunak, Søren & Sørensen, F. B., 2018, In: OncoTarget. 9, 10, p. 9043-9060 18 p.

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

  37. Analysis of cell death inducing compounds

    Spicker, J., Pedersen, H. T., Brunak, Søren & Nielsen, H. B., 2007, In: Archives of Toxicology. 81, 11, p. 803-11 9 p.

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

  38. Published

    Analysis of five chronic inflammatory diseases identifies 27 new associations and highlights disease-specific patterns at shared loci

    Ellinghaus, D., Jostins, L., Spain, S. L., Cortes, A., Bethune, J., Han, B., Park, Y. R., Raychaudhuri, S., Pouget, J. G., Hübenthal, M., Folseraas, T., Wang, Y., Esko, T., Metspalu, A., Westra, H-J., Franke, L., Pers, T. H., Weersma, R. K., Collij, V., D'Amato, M. & 26 others, Halfvarson, J., Jensen, A. B., Lieb, W., Degenhardt, F., Forstner, A. J., Hofmann, A., Schreiber, S., Mrowietz, U., Juran, B. D., Lazaridis, K. N., Brunak, Søren, Dale, A. M., Trembath, R. C., Weidinger, S., Weichenthal, M., Ellinghaus, E., Elder, J. T., Barker, J. N. W. N., Andreassen, O. A., McGovern, D. P., Karlsen, T. H., Barrett, J. C., Parkes, M., Brown, M. A., Franke, A. & International IBD Genetics Consortium (IIBDGC), I. I. G. C. (., May 2016, In: Nature Genetics. 48, 5, p. 510-521 12 p.

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

  39. Published

    Analysis of gene expression profiles of microdissected cell populations indicates that testicular carcinoma in situ is an arrested gonocyte

    Sonne, Si Brask, Almstrup, Kristian, Dalgaard, M., Juncker, A. S., Edsgard, D., Ruban, L., Harrison, N. J., Schwager, C., Abdollahi, A., Huber, P. E., Brunak, Søren, Gjerdrum, L. M., Moore, H. D., Andrews, P. W., Skakkebæk, Niels Erik, Rajpert-De Meyts, E. & Leffers, H., 15 Jun 2009, In: Current Cancer Research. 69, 12, p. 5241-50 10 p.

    Research output: Contribution to journal › Journal article › Research

  40. Published

    Ancient human genome sequence of an extinct Palaeo-Eskimo

    Rasmussen, M., Li, Y., Lindgreen, S., Pedersen, J. S., Albrechtsen, A., Moltke, I., Metspalu, M., Metspalu, E., Kivisild, T., Gupta, R., Bertalan, M., Nielsen, K., Gilbert, T., Wang, Y., Raghavan, M., Campos, P., Kamp, H. L. M., Wilson, A. S., Gledhill, A., Tridico, S. & 32 others, Bunce, M., Lorenzen, Eline, Binladen, J. K. M. A., Guo, X., Zhao, J., Zhang, X., Zhang, H., Li, Z., Chen, M., Orlando, L. A. A., Kristiansen, Karsten, Bak, M., Tommerup, Niels, Bendixen, C., Pierre, T. L., Grønnow, B., Meldgaard, Morten, Andreasen, C., Fedorova, S. A., Osipova, L. P., Higham, T. F. G., Ramsey, C. B., Hansen, Thomas van Overeem, Nielsen, Finn Cilius, Crawford, M. H., Brunak, Søren, Sicheritz-Pontén, T., Villems, R., Nielsen, Rasmus, Krogh, Anders, Wang, J. & Willerslev, Eske, 11 Feb 2010, In: Nature. 463, 7282, p. 757-762 6 p.

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

  41. 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

  42. 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

  43. Published

    Assembly and analysis of 100 full MHC haplotypes from the Danish population

    Jensen, J. M., Villesen, P., Friborg, R. M., Mailund, T., Besenbacher, S., Sørensen, L. M., Petersen, B., Sibbesen, J. A., Liu, S., Skov, L., Belling, K. G., Have, C. T., Izarzugaza, J. M. G., Grosjean, M., Bork-Jensen, J., Grove, J., Als, T. D., Huang, S., Chang, Y., Xu, R. & 39 others, Ye, W., Rao, J., Guo, X., Sun, J., Cao, H., Ye, C., Beusekom, J. V., Espeseth, T., Flindt, E., Halager, A. E., Hellard, S. L., Hultman, C. M., Lescai, F., Li, S., Lund, O., Løngren, P., Matey-Hernandez, M. L., Mors, O., Pedersen, C. N. S., Sicheritz-Pontén, T., Sullivan, P., Syed, A., Westergaard, D., Yadav, R., Li, N., Xu, X., Hansen, Torben, Bolund, L., Krogh, Anders, Sørensen, Thorkild I.A., Pedersen, Oluf Borbye, Gupta, R., Rasmussen, Simon, Børglum, A. D., Wang, J., Eiberg, Hans Rudolf Lytchoff, Kristiansen, Karsten, Brunak, Søren & Schierup, M. H., Sep 2017, In: Genome Research. 27, 9, p. 1597-1607 11 p.

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

  44. Published

    Association between antipsychotic drug dose and length of clinical notes: a proxy of disease severity?

    Sørup, Freja Karuna Hemmingsen, Brunak, Søren & Eriksson, R., 2020, In: BMC Medical Research Methodology. 20, 1, 7 p., 107.

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

  45. 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

  46. Published

    Association of Variants Near the Bradykinin Receptor B2 Gene With Angioedema in Patients Taking ACE Inhibitors

    Ghouse, Jonas, Ahlberg, G., Andreasen, Laura Korsholm, Banasik, Karina, Brunak, Søren, Schwinn, M., Larsen, I. H., Petersen, O., Sørensen, E., Ullum, H., Rasmussen, E. R., Eriksson, N., Hallberg, P., Wadelius, M., Bundgård, Henning & Olesen, Morten Steen Salling, 2021, In: Journal of the American College of Cardiology. 78, 7, p. 696-709 14 p.

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

  47. Published

    Associations of ABO and Rhesus D blood groups with phenome-wide disease incidence: A 41-year retrospective cohort study of 482,914 patients

    Bruun-Rasmussen, P., Dziegiel, Morten Hanefeld, Banasik, Karina, Jo­hans­son, Pär In­ge­mar & Brunak, Søren, 2023, In: eLife. 12, 17 p., e83116.

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

  48. Published

    Author Correction: Leveraging European infrastructures to access 1 million human genomes by 2022

    Saunders, G., Baudis, M., Becker, R., Beltran, S., Béroud, C., Birney, E., Brooksbank, C., Brunak, S., Van den Bulcke, M., Drysdale, R., Capella-Gutierrez, S., Flicek, P., Florindi, F., Goodhand, P., Gut, I., Heringa, J., Holub, P., Hooyberghs, J., Juty, N., Keane, T. M. & 21 others, Korbel, J. O., Lappalainen, I., Leskosek, B., Matthijs, G., Mayrhofer, M. T., Metspalu, A., Navarro, A., Newhouse, S., Nyrönen, T., Page, A., Persson, B., Palotie, A., Parkinson, H., Rambla, J., Salgado, D., Steinfelder, E., Swertz, M. A., Valencia, A., Varma, S., Blomberg, N. & Scollen, S., Nov 2019, In: Nature Reviews. Genetics. 20, 11, p. 702

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

  49. 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

  50. 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

  51. Published

    Bioinformatics-driven identification and examination of candidate genes for non-alcoholic fatty liver disease

    Banasik, Karina, Justesen, Johanne Marie, Hornbak, M., Krarup, N. T., Gjesing, A. P., Sandholt, C. H., Søndergaard Jensen, T., Grarup, Niels, Andersson, Åsa, Jørgensen, T., Witte, D. R., Sandbæk, A., Lauritzen, T., Thorens, B., Brunak, Søren, Sørensen, Thorkild I.A., Pedersen, Oluf Borbye & Hansen, Torben, 1 Jan 2011, In: P L o S One. 6, 1, p. e16542

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

  52. Published

    Cancer LncRNA Census reveals evidence for deep functional conservation of long noncoding RNAs in tumorigenesis

    Carlevaro-Fita, J., Lanzós, A., Feuerbach, L., Hong, C., Mas-Ponte, D., Pedersen, J. S., Johnson, R., Sidiropoulos, N., Weischenfeldt, Joachim Lütken & Brunak, Søren, 2020, In: Communications Biology. 3, 1, p. 1-16 56.

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

  53. 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

  54. Published

    ChemProt: a disease chemical biology database

    Taboureau, O., Nielsen, S. K., Audouze, K. M. L., Weinhold, N., Edsgärd, D., Roque, F. S., Kouskoumvekaki, I., Bora, A., Curpan, R., Jensen, T. S., Brunak, Søren & Oprea, T., 2011, In: Nucleic Acids Research. 39, Database issue, p. D367-72

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

  55. 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

  56. 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

  57. Published

    Cholesterol not particle concentration mediates the atherogenic risk conferred by apolipoprotein B particles - A Mendelian randomization analysis

    Helgadottir, A., Thorleifsson, G., Snaebjarnarson, A., Stefansdottir, L., Sveinbjornsson, G., Tragante, V., Björnsson, E., Steinthorsdottir, V., Gretarsdottir, S., Helgason, H., Saemundsdottir, J., Olafsson, I., Thune, J. J., Axelsson Raja, A., Ghouse, J., Olesen, M. S., Christensen, A., Jacobsen, R. L., Dowsett, J., Bruun, M. T. & 18 others, Nielsen, K., Knowlton, K., Nadauld, L., Benediktsson, R., Erikstrup, C., Pedersen, Ole Birger Vesterager, Banasik, Karina, Brunak, Søren, Bundgård, Henning, Ostrowski, Sisse Rye, Sulem, P., Arnar, D. O., Thorgeirsson, G., Thorsteinsdottir, U., Gudbjartsson, D. F., Stefansson, K., Holm, H. & DBDS Genomic Consortium, D. G. C., 2022, In: European Journal of Preventive Cardiology. 29, 18, p. 2374–2385

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

  58. 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

  59. Published

    Circular reasoning rather than cyclic expression

    Jensen, Lars Juhl, de Lichtenberg, U., Jensen, T. S., Brunak, Søren & Bork, P., 2008, In: Genome Biology. 9, 6, p. 403

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

  60. Published

    Classification of Left and Right Coronary Arteries in Coronary Angiographies Using Deep Learning

    Eschen, Christian Kim, Banasik, Karina, Christensen, Alex Hørby, Chmura, Piotr Jaroslaw, Pedersen, F., Køber, Lars Valeur, Engstrøm, Thomas, Dahl, A. B., Brunak, Søren & Bundgård, Henning, 2022, In: Electronics (Switzerland). 11, 13, 9 p., 2087.

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

  61. Published

    Clinical, genetic, and experimental increase in soluble urokinase plasminogen activator receptor levels promotes atherosclerosis

    Hindy, G., Tyrrell, D. J., Vasbinder, A., Wei, C., Presswalla, F., Wang, H., Blakely, P. K., Ozel, A. B., Graham, S. E., Holton, G. H., Dowsett, J., Fahed, A. C., Amadi, K-M., Erne, G. K., Tekumulla, A., Ismail, A., Launius, C., Sotoodehnia, N., Pankow, J. S., Thørner, L. W. & 22 others, Erikstrup, C., Pedersen, Ole Birger Vesterager, Banasik, Karina, Brunak, Søren, Ullum, H., Eugen-Olsen, J., Ostrowski, Sisse Rye, Haas, M. E., Nielsen, J. B., Lotta, L. A., Engström, G., Melander, O., Orho-Melander, M., Zhao, L., Murthy, V. L., Pinsky, D. J., Willer, C. J., Heckbert, S. R., Reiser, J., Goldstein, D. R., Desch, K. C. & Hayek, S. S., 2022, In: Journal of Clinical Investigation. 132, 24, 14 p., e158788.

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

  62. Published

    Clonal hematopoiesis and COVID-19 hospitalization in Danish adults

    Burgos Sequeros, C., Tulstrup, M., Bliddal, S., Sørensen, K. M., Nissen, I., Rezahosseini, O., Brooks, P. T., Feenstra, B., Gang, A. O., Geller, F., Hald, A., Harboe, Z. B., Helleberg, M., Jespersen, J. S., Lebech, A. M., Lindegaard, B., Mogensen, T. H., Møller, M. E. E., Nielsen, C. H., Niemann, C. U. & 13 others, Podlekareva, D., Sejdic, A., Sørensen, E., Teglgaard, R. S., Tommerup, Niels, Weis, Nina, Brunak, Søren, Pedersen, Ole Birger Vesterager, Banasik, Karina, Feldt-Rasmussen, Ulla, Nielsen, Susanne Dam, Ostrowski, Sisse Rye & Grønbæk, Kirsten, 2024, In: HemaSphere. 8, 3, 5 p., e58.

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

  63. Co-evolution of transcriptional and post-translational cell-cycle regulation

    Jensen, L. J., Jensen, T. S., de Lichtenberg, U., Brunak, Søren & Bork, P., 2006, In: Nature Study. 443, 7111, p. 594-7 4 p.

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

  64. Published

    Cofactory: Sequence-based prediction of cofactor specificity of Rossmann folds

    Geertz-Hansen, H. M., Blom, N., Feist, A., Brunak, Søren & Petersen, T. N., 13 Feb 2014, In: Proteins: Structure, Function, and Bioinformatics. 82, 9, p. 1819-1828 10 p.

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

  65. Published

    Cohort Profile: The Danish Blood Donor Study

    Erikstrup, C., Sørensen, E., Nielsen, K. R., Bruun, M. T., Petersen, M. S., Rostgaard, K., Thørner, L. W., Larsen, M., Mikkelsen, S., Dinh, K. M., Schwinn, M., Rigas, A. S., Didriksen, M., Dowsett, J., von Stemann, J. H., Brodersen, T., Paulsen, I. W., Hindhede, L., Sækmose, S. G., Kaspersen, K. A. & 10 others, Boldsen, J. K., Kjerulff, B., Werge, Thomas, Brunak, Søren, Banasik, Karina, Hansen, Thomas Folkmann, Ullum, H., Hjalgrim, Henrik, Ostrowski, Sisse Rye & Pedersen, Ole Birger Vesterager, 2023, In: International Journal of Epidemiology. 52, 3, p. e162-e171 10 p.

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

  66. 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

  67. Published

    Combined Ensemble Docking and Machine Learning in Identification of Therapeutic Agents with Potential Inhibitory Effect on Human CES1

    Briand, E., Thomsen, Ragnar, Linnet, Kristian, Rasmussen, H. B., Brunak, Søren & Taboureau, O., 2019, In: Molecules. 24, 15, 17 p.

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

  68. Published

    Combined burden and functional impact tests for cancer driver discovery using DriverPower

    Shuai, S., Abascal, F., Amin, S. B., Bader, G. D., Bandopadhayay, P., Barenboim, J., Beroukhim, R., Bertl, J., Boroevich, K. A., Brunak, S., Campbell, P. J., Carlevaro-Fita, J., Chakravarty, D., Chan, C. W. Y., Chen, K., Choi, J. K., Deu-Pons, J., Dhingra, P., Diamanti, K., Feuerbach, L. & 32 others, Fink, J. L., Fonseca, N. A., Frigola, J., Gambacorti-Passerini, C., Garsed, D. W., Gerstein, M., Getz, G., 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., Isaev, K., Izarzugaza, J. M. G., Johnson, R., Johnson, T. A., Juul, M., Juul, R. I., Kahles, A., Pedersen, J. S., Sidiropoulos, N., Weischenfeldt, Joachim Lütken, PCAWG Drivers and Functional Interpretation Working Group, P. D. A. F. I. W. G. & PCAWG Consortium, P. C., 2020, In: Nature Communications. 11, 1, 12 p., 734.

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

  69. Published

    Combing the Hairball: Improving Visualization of miRNA-Target Interaction Networks

    Russo, F., Hjaltelin, Jessica Xin, Romero Herrera, J. A. & Brunak, Søren, 2019, MicroRNA Target Identification: Methods and Protocols. Laganà, A. (ed.). Humana Press, p. 279-289 11 p. (Methods in Molecular Biology, Vol. 1970).

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

  70. 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

  71. Published

    Comorbidity landscape of the Danish patient population affected by chromosomal abnormalities

    Russo, F., Jørgensen, Isabella Friis, Westergaard, David, Jensen, A. B., Hjaltelin, Jessica Xin, Belling, K. & Brunak, Søren, 2018, In: European Journal of Human Genetics. 26, p. 697-698

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

  72. 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

  73. Comparison of computational methods for the identification of cell cycle-regulated genes

    de Lichtenberg, U., Jensen, L. J., Fausbøll, A., Jensen, T. S., Bork, P. & Brunak, Søren, 2005, In: Bioinformatics. 21, 7, p. 1164-71 8 p.

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

  74. 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

  75. Published

    Comparison of quantitative trait loci methods: Total expression and allelic imbalance method in brain RNA-seq

    Gådin, J. R., Buil, A., Colantuoni, C., Jaffe, A. E., Nielsen, J., Shin, J., Hyde, T. M., Kleinman, J. E., Plath, N., Eriksson, P., Brunak, Søren, Didriksen, M., Weinberger, D. R., Folkersen, L. & BrainSeq Consortium, B. C., 2019, In: PLoS ONE. 14, 6, 16 p., e0217765.

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

  76. 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

  77. 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

  78. Complete genes may pass from food to human blood

    Spisák, S., Solymosi, N., Ittzés, P., Bodor, A., Kondor, D., Vattay, G., Barták, B. K., Sipos, F., Galamb, O., Tulassay, Z., Szállási, Z., Rasmussen, Simon, Sicheritz-Ponten, T., Brunak, Søren, Molnár, B. & Csabai, I., 2013, In: PloS one. 8, 7, p. e69805

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

  79. Published

    Complex effects of sequence variants on lipid levels and coronary artery disease

    Snaebjarnarson, A. S., Helgadottir, A., Arnadottir, G. A., Ivarsdottir, E. V., Thorleifsson, G., Ferkingstad, E., Einarsson, G., Sveinbjornsson, G., Thorgeirsson, T. E., Ulfarsson, M. O., Halldorsson, B. V., Olafsson, I., Erikstrup, C., Pedersen, O. B., Nyegaard, M., Bruun, M. T., Ullum, H., Brunak, S., Iversen, K. K., Christensen, A. H. & 14 others, Olesen, Morten Steen Salling, Ghouse, Jonas, Banasik, Karina, Knowlton, K. U., Arnar, D. O., Thorgeirsson, G., Nadauld, L., Ostrowski, Sisse Rye, Bundgård, Henning, Holm, H., Sulem, P., Stefansson, K., Gudbjartsson, D. F. & DBDS Genomic Consortium, D. G. C., 2023, In: Cell. 186, 19, p. 4085-4099.e15

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

  80. Published

    Concordance of gene expression in human protein complexes reveals tissue specificity and pathology

    Börnigen, D., Pers, T. H., Thorrez, L., Huttenhower, C., Moreau, Y. & Brunak, Søren, 5 Aug 2013, In: Nucleic Acids Research. 41, 18, p. e171

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

  81. Published

    Conflicting associations between dietary patterns and changes of anthropometric traits across subgroups of middle-aged women and men

    Jiang, L., Audouze, K., Romero Herrera, J. A., Ängquist, Lars, Kjærulff, S. K., Izarzugaza, J. M. G., Tjønneland, Anne, Halkjær, J., Overvad, K., Sørensen, Thorkild I.A. & Brunak, Søren, 2020, In: Clinical Nutrition. 39, 1, p. 265-275

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

  82. 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

  83. Published

    Contaminating viral sequences in high-throughput sequencing viromics: a linkage study of 700 sequencing libraries

    Asplund, M., Kjartansdóttir, K. R., Mollerup, S., Vinner, L., Fridholm, H., Herrera, J. A. R., Friis-Nielsen, J., Hansen, T. A., Jensen, R. H., Nielsen, I. B., Richter, S. R., Rey-Iglesia, A., Matey-Hernandez, M. L., Alquezar-Planas, D. E., Olsen, P. V. S., Sicheritz-Pontén, T., Willerslev, E., Lund, O., Brunak, S., Mourier, T. & 3 others, Nielsen, L. P., Izarzugaza, J. M. G. & Hansen, Anders Johannes, 2019, In: Clinical Microbiology and Infection. 25, 10, p. 1277-1285

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

  84. Published

    Corrigendum: Disentangling type 2 diabetes and metformin treatment signatures in the human gut microbiota

    Forslund, K., Hildebrand, F., Nielsen, T., Falony, G., Le Chatelier, E., Sunagawa, S., Prifti, E., Vieira-Silva, S., Gudmundsdottir, V., Pedersen, H. K., Arumugam, M., Kristiansen, K., Voigt, A. Y., Vestergaard, H., Hercog, R., Costea, P. I., Kultima, J. R., Li, J., Jørgensen, T., Levenez, F. & 10 others, Doré, J., Nielsen, H. B., Brunak, Søren, Raes, J., Hansen, Torben, Wang, J., Ehrlich, S. D., Bork, P., Pedersen, Oluf Borbye & MetaHIT consortium, M. C., 3 May 2017, In: Nature. 545, 116, 1 p., 22318.

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

  85. Published

    Cost-effective multiplexing before capture allows screening of 25 000 clinically relevant SNPs in childhood acute lymphoblastic leukemia

    Wesolowska, A., Gautier, L., Weinhold, N., Audouze, K. M. L., Brunak, Søren, Sicheritz-Ponten, T., Gupta, R., Dalgaard, M. D., Nielsen, B. F., Leffers, H., Borst, L., Helt, L. R., Nersting, J., Schmiegelow, Kjeld, Bak, M. & Tommerup, Niels, 1 Jun 2011, In: Leukemia. 25, 6, p. 1001-1006 6 p.

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

  86. 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

  87. Published

    Cross-tissue transcriptome-wide association studies identify susceptibility genes shared between schizophrenia and inflammatory bowel disease

    Uellendahl-Werth, F., Maj, C., Borisov, O., Juzenas, S., Wacker, E. M., Jorgensen, I. F., Steiert, T. A., Bej, S., Krawitz, P., Hoffmann, P., Schramm, C., Wolkenhauer, O., Banasik, K., Brunak, S., Schreiber, S., Karlsen, T. H., Degenhardt, F., Noethen, M., Franke, A., Folseraas, T. & 1 others, Ellinghaus, D., 2022, In: Communications Biology. 5, 15 p., 80.

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

  88. 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

  89. Published

    Cyclebase.org: version 2.0, an updated comprehensive, multi-species repository of cell cycle experiments and derived analysis results

    Gauthier, N. P., Jensen, Lars Juhl, Wernersson, R., Brunak, Søren & Jensen, T. S., 2010, In: Nucleic Acids Research. 38, Database issue, p. D699-702

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

  90. Published

    DBDS Genomic Cohort, a prospective and comprehensive resource for integrative and temporal analysis of genetic, environmental and lifestyle factors affecting health of blood donors

    Hansen, T. F., Banasik, K., Erikstrup, C., Pedersen, O. B., Westergaard, D., Chmura, P. J., Nielsen, K., Thørner, L., Hjalgrim, H., Paarup, H., Larsen, M. A. H., Petersen, M., Jennum, P., Andersen, S., Nyegaard, M., Jemec, G. B. E., Olesen, J., Werge, T., Johansson, P. I., Sørensen, E. & 3 others, Brunak, Søren, Ullum, H. & Burgdorf, Kristoffer Sølvsten, 9 Jun 2019, In: BMJ Open. 9, 6, p. 1-7 7 p., e028401.

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

  91. Published

    DanMAC5: a browser of aggregated sequence variants from 8,671 whole genome sequenced Danish individuals

    Banasik, K., Møller, P. L., Techlo, T. R., Holm, P. C., Walters, G. B., Ingason, A., Rosengren, A., Rohde, P. D., Kogelman, L. J. A., Westergaard, D., Siggaard, T., Chmura, P. J., Chalmer, M. A., Magnússon, Ó., Þórisson, G., Stefánsson, H., Guðbjartsson, D. F., Stefánsson, K., Olesen, J., Winther, S. & 5 others, Bøttcher, M., Brunak, Søren, Werge, Thomas, Nyegaard, M. & Hansen, Thomas Folkmann, 2023, In: BMC Genomic Data. 24, 1, 4 p., 30.

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

  92. Published

    Data Resource Profile: The Copenhagen Hospital Biobank (CHB)

    Sørensen, E., Christiansen, L., Wilkowski, B., Larsen, M. H., Burgdorf, Kristoffer Sølvsten, Thørner, L. W., Nissen, J., Pedersen, Ole Birger Vesterager, Banasik, Karina, Brunak, Søren, Bundgård, Henning, Stefánsson, H., Stefánsson, K., Melbye, M. & Ullum, H., 2021, In: International Journal of Epidemiology. 50, 3, p. 719-720e

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

  93. Published

    Deep integrative models for large-scale human genomics

    Sigurdsson, Arnór Ingi, Louloudis, Ioannis, Banasik, Karina, Westergaard, David, Winther, Ole, Lund, O., Ostrowski, Sisse Rye, Erikstrup, C., Pedersen, Ole Birger Vesterager, Nyegaard, Mette, Brunak, Søren, Vilhjálmsson, B. & Rasmussen, Simon, 2023, In: Nucleic Acids Symposium Series. 51, 12, 16 p.

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

  94. 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

  95. Published

    Detailed stratified GWAS analysis for severe COVID-19 in four European populations

    Degenhardt, F., Ellinghaus, D., Juzenas, S., Lerga-Jaso, J., Wendorff, M., Maya-Miles, D., Uellendahl-Werth, F., ElAbd, H., Rühlemann, M. C., Arora, J., Özer, O., Lenning, O. B., Myhre, R., Vadla, M. S., Wacker, E. M., Wienbrandt, L., Ortiz, A. B., Salazar, A., Chercoles, A. G., Palom, A. & 31 others, Ruiz, A., Garcia-Fernandez, A., Blanco-Grau, A., Mantovani, A., Zanella, A., Holten, A. R., Mayer, A., Bandera, A., Cherubini, A., Protti, A., Aghemo, A., Gerussi, A., Ramirez, A., Braun, A., Nebel, A., Barreira, A., Lleo, A., Teles, A., Kildal, A. B., Biondi, A., Caballero-Garralda, A., Ganna, A., Gori, A., Glück, A., Lind, A., Hinney, A., Jensen, B., Banasik, Karina, Castro, P., Brunak, Søren & COVICAT study group, Aachen Study (COVAS), C. S. G. A. S. (., 2022, In: Human Molecular Genetics. 31, 23, p. 3945-3966 22 p.

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

  96. Published

    Detection of Molecular Signatures of Homologous Recombination Deficiency in Bladder Cancer

    Pilmark, Judit Börcsök, Diossy, M., Sztupinszki, Z., Prosz, A., Tisza, V., Spisak, S., Rusz, O., Stormoen, D. R., Pappot, Helle, Csabai, I., Brunak, Søren, Mouw, K. W. & Szallasi, Z., 2021, In: Clinical Cancer Research. 27, 13, 10 p.

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

  97. 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

  98. 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

  99. Published

    Diagnosis trajectories of prior multi-morbidity predict sepsis mortality

    Beck, M. K., Jensen, A. B., Nielsen, A. B., Perner, Anders, Moseley, P. L. & Brunak, Søren, 4 Nov 2016, In: Scientific Reports. 6, 9 p., 36624.

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

  100. Published

    Dictionary construction and identification of possible adverse drug events in Danish clinical narrative text

    Eriksson, R., Jensen, P. B., Pletscher-Frankild, S., Jensen, Lars Juhl & Brunak, Søren, 23 May 2013, In: JAMIA - Journal of the American Medical Informatics Association. 20, 5, p. 947-953 7 p.

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

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