Søren Brunak
Professor
Brunak Group
Blegdamsvej 3B
2200 København N
- Published
wKinMut-2: Identification and Interpretation of Pathogenic Variants in Human Protein Kinases
Vazquez, M., Pons, T., Brunak, Søren, Valencia, A. & Izarzugaza, J. M. G., Jan 2016, In: Human Mutation. 37, 1, p. 36-42 7 p.Research output: Contribution to journal › Journal article › Research › peer-review
- Published
sAOP: linking chemical stressors to adverse outcomes pathway networks
Aguayo-Orozco, A., Audouze, K., Siggaard, T., Barouki, R., Brunak, Søren & Taboureau, O., 2019, In: Bioinformatics. 2 p.Research output: Contribution to journal › Journal article › Research › peer-review
- Published
miRandola 2017: a curated knowledge base of non-invasive biomarkers
Russo, F., Di Bella, S., Vannini, F., Berti, G., Scoyni, F., Cook, H. V., Santos, A., Nigita, G., Bonnici, V., Laganà, A., Geraci, F., Pulvirenti, A., Giugno, R., De Masi, F., Belling, K., Jensen, Lars Juhl, Brunak, Søren, Pellegrini, M. & Ferro, A., 1 Jan 2018, In: Nucleic Acids Research. 46, D1, p. D354-D359 6 p.Research output: Contribution to journal › Journal article › Research › peer-review
- 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
- Published
eTRANSAFE: data science to empower translational safety assessment
Sanz, F., Pognan, F., Steger-Hartmann, T., Díaz, C., Asakura, S., Amberg, A., Bécourt-Lhote, N., Blomberg, N., Bosc, N., Briggs, K., Bringezu, F., Brulle-Wohlhueter, C., Brunak, S., Bueters, R., Callegaro, G., Capella-Gutierrez, S., Centeno, E., Corvi, J., Cronin, M. T. D., Drew, P. & 41 others, , 2023, In: Nature Reviews Drug Discovery. 22, 8, p. 605-606 2 p.Research output: Contribution to journal › Comment/debate › Research
- Published
Whole blood co-expression modules associate with metabolic traits and type 2 diabetes: an IMI-DIRECT study
Gudmundsdottir, V., Pedersen, H. K., Mazzoni, G., Allin, K. H., Artati, A., Beulens, J. W., Banasik, K., Brorsson, C., Cederberg, H., Chabanova, E., De Masi, F., Elders, P. J., Forgie, I., Giordano, G. N., Grallert, H., Gupta, R., Haid, M., Hansen, T., Hansen, T. H., Hattersley, A. T. & 36 others, , 2020, In: Genome Medicine. 12, 1, 17 p., 109.Research output: Contribution to journal › Journal article › Research › peer-review
- Published
Visualising disease trajectories from population-wide data
Hjaltelin, Jessica Xin, Currant, H., Jørgensen, Isabella Friis & Brunak, Søren, 2023, In: Frontiers in Bioinformatics. 3, 5 p., 1112113.Research output: Contribution to journal › Editorial › Research › peer-review
- Published
Variants at the Interleukin 1 Gene Locus and Pericarditis
Thorolfsdottir, R. B., Jonsdottir, A. B., Sveinbjornsson, G., Aegisdottir, H. M., Oddsson, A., Stefansson, O. A., Halldorsson, G. H., Saevarsdottir, S., Thorleifsson, G., Stefansdottir, L., Pedersen, O. B., Sørensen, E., Ghouse, J., Raja, A. A., Zheng, C., Silajdzija, E., Rand, S. A., Erikstrup, C., Ullum, H., Mikkelsen, C. & 26 others, , 2024, In: JAMA Cardiology. 9, 2, p. 165-172 8 p.Research output: Contribution to journal › Journal article › Research › peer-review
- E-pub ahead of print
Variant in the synaptonemal complex protein SYCE2 associates with pregnancy loss through effect on recombination
Steinthorsdottir, V., Halldorsson, B. V., Jonsson, H., Palsson, G., Oddsson, A., Westergaard, D., Arnadottir, G. A., Stefansdottir, L., Banasik, K., Esplin, M. S., Hansen, T. F., Brunak, S., Nyegaard, M., Ostrowski, S. R., Pedersen, O. B. V., Erikstrup, C., Thorleifsson, G., Nadauld, L. D., Haraldsson, A., Steingrimsdottir, T. & 8 others, , 2024, (E-pub ahead of print) In: Nature Structural and Molecular Biology. 17 p.Research output: Contribution to journal › Journal article › Research › peer-review
- Published
Using electronic patient records to discover disease correlations and stratify patient cohorts
Roque, F. S., Jensen, P. B., Schmock, H., Dalgaard, M., Andreatta, M., Hansen, T., Søeby, K., Bredkjær, S., Juul, Anders, Werge, Thomas, Jensen, Lars Juhl & Brunak, Søren, 2011, In: P L o S Computational Biology. 7, 8, p. e1002141 10 p.Research output: Contribution to journal › Journal article › Research › peer-review
- 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
- 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, , 2018, In: Nature Reviews. Drug Discovery. 17, 5, p. 317-332 16 p.Research output: Contribution to journal › Review › Research › peer-review
- Published
Understanding inherent image features in CNN-based assessment of diabetic retinopathy
Reguant, R., Brunak, Søren & Saha, S., 2021, In: Scientific Reports. 11, 12 p., 9704.Research output: Contribution to journal › Journal article › Research › peer-review
Uncovering the molecular machinery of the human spindle--an integration of wet and dry systems biology
Rojas, A. M., Santamaria, A., Malik, R., Jensen, T. S., Körner, R., Morilla, I., de Juan, D., Krallinger, M., Hansen, D. A., Hoffmann, R., Lees, J., Reid, A., Yeats, C., Wehner, A., Elowe, S., Clegg, A. B., Brunak, S., Nigg, E. A., Orengo, C., Valencia, A. & 1 others, , 2012, In: P L o S One. 7, 3, p. e31813Research output: Contribution to journal › Journal article › Research › peer-review
- Published
Type I Interferons Promote Germinal Centers Through B Cell Intrinsic Signaling and Dendritic Cell Dependent Th1 and Tfh Cell Lineages
Dahlgren, M. W., Plumb, A. W., Niss, K., Lahl, K., Brunak, Søren & Johansson-Lindbom, B., 2022, In: Frontiers in Immunology. 13, 18 p., 932388.Research output: Contribution to journal › Journal article › Research › peer-review
- Published
Transcriptome profiling of mice testes following low dose irradiation
Belling, K. C., Nielsen, H. B., Brunak, Søren, Tanaka, M., Dalgaard, M. D., Nielsen, J. E., Almstrup, Kristian & Leffers, H., 28 May 2013, In: Reproductive Biology and Endocrinology. 11, 1, 13 p., 50.Research output: Contribution to journal › Journal article › Research › peer-review
- Published
Transcriptome analysis of the adult human Klinefelter testis and cellularity-matched controls reveals disturbed differentiation of Sertoli- and Leydig cells
Winge, S. B., Dalgaard, M. D., Belling, K. G., Jensen, J. M., Nielsen, J. E., Aksglaede, L., Schierup, M. H., Brunak, Søren, Skakkebæk, Niels Erik, Juul, Anders, Rajpert-De Meyts, E. & Almstrup, Kristian, 2018, In: Cell Death & Disease. 9, 6, 14 p., 586.Research output: Contribution to journal › Journal article › Research › peer-review
- 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, , 26 Aug 2016, In: Nature Microbiology. 1, p. 1-6 6 p., 16152.Research output: Contribution to journal › Letter › Research › peer-review
- Published
Towards standardization guidelines for in silico approaches in personalized medicine
Brunak, Søren, Bjerre, C. C., Ó Cathaoir, Katharina, Golebiewski, M., Kirschner, M., Kockum, I., Moser, H. & Waltemath, D., 2020, In: Journal of integrative bioinformatics. 17, 2-3, 14 p.Research output: Contribution to journal › Journal article › Research › peer-review
- Published
Tools and data services registry: a community effort to document bioinformatics resources
Ison, J., Rapacki, K., Ménager, H., Kalaš, M., Rydza, E., Chmura, P., Anthon, C., Beard, N., Berka, K., Bolser, D., Booth, T., Bretaudeau, A., Brezovsky, J., Casadio, R., Cesareni, G., Coppens, F., Cornell, M., Cuccuru, G., Davidsen, K., Vedova, G. D. & 49 others, , 2016, In: Nucleic Acids Research. 44, D1, p. D38-D47 10 p.Research output: Contribution to journal › Journal article › Research › peer-review
- 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
- Published
The use of systems biology in chemical risk assessment
Aguayo-Orozco, A., Taboureau, O. & Brunak, Søren, 2019, In: Current Opinion in Toxicology. 15, p. 48-54 7 p.Research output: Contribution to journal › Review › Research › peer-review
- Published
The type 2 diabetes associated minor allele of rs2237895 KCNQ1 associates with reduced insulin release following an oral glucose load
Holmkvist, J., Banasik, K., Andersen, G., Unoki, H., Jensen, T. S., Pisinger, C., Borch-Johnsen, K., Sandbaek, A., Lauritzen, T., Brunak, Søren, Maeda, S., Hansen, T. & Pedersen, Oluf Borbye, 2009, In: PLoS ONE. 4, 6, p. e5872Research output: Contribution to journal › Journal article › Research › peer-review
- Published
The temporal association of hyperhidrosis and its comorbidities – a nationwide hospital-based cohort study
Henning, M. A. S., Reguant, R., Jørgensen, Isabella Friis, Andersen, Rune Kjærsgaard, Ibler, Kristina Sophie, Pedersen, Ole Birger Vesterager, Jemec, Gregor & Brunak, Søren, 2022, In: Journal of the European Academy of Dermatology and Venereology. 36, 12, p. 2504-2511Research output: Contribution to journal › Journal article › Research › peer-review
The strength of intron donor splice sites in human genes displays a bell-shaped pattern
Wang, K., Wernersson, R. & Brunak, Søren, 2011, In: Bioinformatics (Online). 27, 22, p. 3079-84 6 p.Research output: Contribution to journal › Journal article › Research › peer-review
- 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
- Published
The sequences of 150,119 genomes in the UK Biobank
Halldorsson, B. V., Eggertsson, H. P., Moore, K. H. S., Hauswedell, H., Eiriksson, O., Ulfarsson, M. O., Palsson, G., Hardarson, M. T., Oddsson, A., Jensson, B. O., Kristmundsdottir, S., Sigurpalsdottir, B. D., Stefansson, O. A., Beyter, D., Holley, G., Tragante, V., Gylfason, A., Olason, P. I., Zink, F., Asgeirsdottir, M. & 27 others, , 2022, In: Nature. 607Research output: Contribution to journal › Journal article › Research › peer-review
- 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, , 2020, In: Diabetologia. 63, 4, p. 744-756 13 p.Research output: Contribution to journal › Journal article › Research › peer-review
- Published
The robot butler: How and why should we study predictive algorithms and artificial intelligence (AI) in healthcare?
Gjødsbøl, Iben Mundbjerg, Ringgaard, A. K., Holm, Peter Christoffer, Brunak, Søren & Bundgård, Henning, 2024, In: Digital Health. 10, 13 p.Research output: Contribution to journal › Journal article › Research › peer-review
- Published
The protein kinase SIK downregulates the polarity protein Par3
Vanlandewijck, M., Dadras, M. S., Lomnytska, M., Mahzabin, T., Miller, M. L., Busch, C., Brunak, Søren, Heldin, C. & Moustakas, A., 2018, In: OncoTarget. 9, 5, p. 5716-5735 20 p.Research output: Contribution to journal › Journal article › Research › peer-review
- Published
The promise of digital healthcare technologies
Yeung, A. W. K., Torkamani, A., Butte, A. J., Glicksberg, B. S., Schuller, B., Rodriguez, B., Ting, D. S. W., Bates, D., Schaden, E., Peng, H., Willschke, H., van der Laak, J., Car, J., Rahimi, K., Celi, L. A., Banach, M., Kletecka-Pulker, M., Kimberger, O., Eils, R., Islam, S. M. S. & 5 others, , 2023, In: Frontiers in Public Health. 11, 12 p., 1196596.Research output: Contribution to journal › Review › Research › peer-review
The implications of alternative splicing in the ENCODE protein complement
Tress, M. L., Martelli, P. L., Frankish, A., Reeves, G. A., Wesselink, J. J., Yeats, C., Olason, P. I., Albrecht, M., Hegyi, H., Giorgetti, A., Raimondo, D., Lagarde, J., Laskowski, R. A., López, G., Sadowski, M. I., Watson, J. D., Fariselli, P., Rossi, I., Nagy, A., Kai, W. & 26 others, , 2007, In: Proceedings of the National Academy of Sciences of the United States of America. 104, 13, p. 5495-500 6 p.Research output: Contribution to journal › Journal article › Research › peer-review
- 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
- 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. 2226-2233Research output: Contribution to journal › Journal article › Research › peer-review
- Published
The hunt for fatal myocardial infarction biomarkers: predictive circulating microRNAs
Russo, F., Rizzo, M., Belling, K., Brunak, Søren & Folkersen, L., Oct 2016, In: Journal of Translational Medicine. 4, Suppl 1, 4 p., S1.Research output: Contribution to journal › Editorial › Research
- Published
The governance structure for data access in the DIRECT consortium: an innovative medicines initiative (IMI) project
Teare, H. J. A., de Masi, F., Banasik, Karina, Barnett, A., Herrgard, S., Jablonka, B., Postma, J. W. M., McDonald, T. J., Forgie, I., Chmura, P. J., Rydzka, E. K., Gupta, R., Brunak, Søren, Pearson, E. & Kaye, J., 2018, In: Life Sciences, Society and Policy. 14, 1, p. 1-17 20.Research output: Contribution to journal › Journal article › Research › peer-review
The cancer exome generated by alternative mRNA splicing dilutes predicted HLA class I epitope density
Stranzl, T., Larsen, M. V., Lund, O., Nielsen, M. & Brunak, Søren, 2012, In: PloS one. 7, 9, p. e38670Research output: Contribution to journal › Journal article › Research › peer-review
- Published
The burden of disease of three food-associated heavy metals in clusters in the Danish population - Towards targeted public health strategies
Herrera, J. A. R., Thomsen, S. T., Jakobsen, L. S., Fagt, S., Banasik, Karina, Izarzugaza, J. M. G., Brunak, Søren & Pires, S. M., 2021, In: Food and Chemical Toxicology. 150, 112072.Research output: Contribution to journal › Journal article › Research › peer-review
The atlas visualisation of genome-wide information
Skovgaard, M., Jensen, L. J., Friis, C., Stærfeldt, H. H., Worning, P., Brunak, Søren & Ussery, D. W., 2002, Methods in Microbiology. Vol. 33. p. 49-63Research output: Chapter in Book/Report/Conference proceeding › Book chapter › Research › peer-review
- Published
The SH2 domain interaction landscape
Tinti, M., Kiemer, L., Costa, S., Miller, M. L., Sacco, F., Olsen, Jesper Velgaard, Carducci, M., Paoluzi, S., Langone, F., Workman, C., Blom, N., Machida, K., Thompson, C. M., Schutkowski, M., Brunak, Søren, Mann, Matthias, Mayer, B. J., Castagnoli, L. & Cesareni, G., 2013, In: Cell Reports. 3, 4, p. 1293-1305 13 p.Research output: Contribution to journal › Journal article › Research › peer-review
- Published
The Interplay of Non-coding RNAs and X Chromosome Inactivation in Human Disease
Russo, F., De Masi, F., Brunak, Søren & Belling, K. G., 2018, Systems Biology. Rajewsky, N., Jurga, S. & Barciszewski, J. (eds.). Springer, p. 229-238 (RNA Technologies).Research output: Chapter in Book/Report/Conference proceeding › Book chapter › Research › peer-review
- Published
The bio.tools registry of software tools and data resources for the life sciences
Ison, J., Ienasescu, H., Chmura, P., Rydza, E., Ménager, H., Kalaš, M., Schwämmle, V., Grüning, B., Beard, N., Lopez, R., Duvaud, S., Stockinger, H., Persson, B., Vařeková, R. S., Raček, T., Vondrášek, J., Peterson, H., Salumets, A., Jonassen, I., Hooft, R. & 16 others, , 2019, In: Genome Biology. 20, 1, 4 p., 164.Research output: Contribution to journal › Letter › Research › peer-review
- Published
Text mining of electronic health records can validate a register-based diagnosis of epilepsy and subgroup into focal and generalized epilepsy
Vulpius, S. A., Werge, S., Jørgensen, Isabella Friis, Siggaard, T., Hernansanz Biel, J., Knudsen, Gitte Moos, Brunak, Søren & Pinborg, Lars Hageman, 2024, In: Epilepsia. 64, 10, p. 2750-2760 11 p.Research output: Contribution to journal › Journal article › Research › peer-review
- Published
Temporal patterns of multi-morbidity in 570157 ischemic heart disease patients: a nationwide cohort study
Haue, Amalie Dahl, Armenteros, J. J. A., Holm, Peter Christoffer, Eriksson, R., Moseley, P. L., Køber, Lars Valeur, Bundgård, Henning & Brunak, Søren, 2022, In: Cardiovascular Diabetology. 21, 13 p., 87.Research output: Contribution to journal › Journal article › Research › peer-review
- Published
Temporal disease trajectories condensed from population-wide registry data covering 6.2 million patients
Jensen, A. B., Moseley, P. L., Oprea, T. I., Ellesøe, S. G., Eriksson, R., Schmock, H., Jensen, P. B., Jensen, Lars Juhl & Brunak, Søren, 24 Jun 2014, In: Nature Communications. 5, 10 p., 4022.Research output: Contribution to journal › Journal article › Research › peer-review
- 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. 1983-1996Research output: Contribution to journal › Journal article › Research › peer-review
- Published
TEMPORAL ORDER OF DISEASE PAIRS AFFECTS SUBSEQUENT DISEASE TRAJECTORIES: THE CASE OF DIABETES AND SLEEP APNEA
Beck, M. K., Westergaard, David, Jensen, A. B., Groop, L. & Brunak, Søren, 2016, In: Pacific Symposium on Biocomputing. Pacific Symposium on Biocomputing. 22, p. 380-389 10 p.Research output: Contribution to journal › Conference article › Research › peer-review
- Published
Systems genetics analysis identifies calcium-signaling defects as novel cause of congenital heart disease
Izarzugaza, J. M. G., Ellesøe, S. G., Doganli, Canan, Ehlers, Natasja Spring, Dalgaard, M. D., Audain, E., Dombrowsky, G., Banasik, Karina, Sifrim, A., Wilsdon, A., Thienpont, B., Breckpot, J., Gewillig, M., Brook, J. D., Hitz, M., Larsen, Lars Allan, Brunak, Søren & Competence Network for Congenital Heart Defects, Germany, C. N. F. C. H. D. G., 2020, In: Genome Medicine. 12, 1, 13 p., 76.Research output: Contribution to journal › Journal article › Research › peer-review
- 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
- 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
- Published
SignalP 6.0 predicts all five types of signal peptides using protein language models
Teufel, Felix Georg, Almagro Armenteros, J. J., Johansen, A. R., Gíslason, M. H., Pihl, S. I., Tsirigos, Konstantinos, Winther, Ole, Brunak, Søren, von Heijne, G. & Nielsen, H., 2022, In: Nature Biotechnology. 40, p. 1023-1025Research output: Contribution to journal › Comment/debate › Research
- Published
SignalP 5.0 improves signal peptide predictions using deep neural networks
Armenteros, J. J. A., Tsirigos, Konstantinos, Sønderby, C. K., Petersen, T. N., Winther, Ole, Brunak, Søren, von Heijne, G. & Nielsen, H., 18 Feb 2019, In: Nature Biotechnology. 37, 4, p. 420-423Research output: Contribution to journal › Journal article › Communication
- 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
- Published
Sex differences in text-mined possible adverse drug events associated with drugs for psychosis
Sørup, Freja Karuna Hemmingsen, Eriksson, R., Westergaard, David, Hallas, J., Brunak, Søren & Andersen, Stig Ejdrup, 2020, In: Journal of Psychopharmacology. 34, 5, p. 532-539 8 p.Research output: Contribution to journal › Journal article › Research › peer-review
- 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
- Published
Sequencing and de novo assembly of 150 genomes from Denmark as a population reference
Sørensen, L. M., Jensen, J. M., Petersen, B., Sibbesen, J. A., Liu, S., Villesen, P., 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., Ye, W., Rao, J., Guo, X. & 39 others, , 2017, In: Nature. 548, 7665, p. 87-91 5 p.Research output: Contribution to journal › Letter › Research › peer-review
- Published
Semen quality and waiting time to pregnancy explored using association mining
Romero Herrera, J. A., Bang, A. K., Priskorn, L., Izarzugaza, J. M. G., Brunak, Søren & Jørgensen, N., 2021, In: Andrology. 9, 2, p. 577-587 11 p.Research output: Contribution to journal › Journal article › Research › peer-review
- Published
Secreted breast tumor interstitial fluid microRNAs and their target genes are associated with triple-negative breast cancer, tumor grade, and immune infiltration
Terkelsen, T., Russo, F., Gromov, P., Haakensen, V. D., Brunak, Søren, Gromova, I., Krogh, Anders & Papaleo, E., 2020, In: Breast Cancer Research. 22, 1, 36 p., 73.Research output: Contribution to journal › Journal article › Research › peer-review
- 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
- 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, , 2007, In: Bioinformatics. 23, 13, p. i387-91 5 p.Research output: Contribution to journal › Journal article › Research › peer-review
- 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, , 2019, In: Nature Genetics. 51, p. 924-930Research output: Contribution to journal › Comment/debate › Research
- Published
Retrospective evaluation of whole exome and genome mutation calls in 746 cancer samples
Bailey, M. H., Meyerson, W. U., Dursi, L. J., Wang, L. B., Dong, G., Liang, W. W., Weerasinghe, A., Li, S., Kelso, S., Akbani, R., Anur, P., Bailey, M. H., Buchanan, A., Chiotti, K., Covington, K., Creason, A., Ding, L., Weischenfeldt, J., Brunak, S., Ding, L. & 4 others, , 2020, In: Nature Communications. 11, 1, 4748.Research output: Contribution to journal › Journal article › Research › peer-review
- Published
Retinoic Acid Signaling in Thymic Epithelial Cells Regulates Thymopoiesis
Wendland, K., Niss, K., Kotarsky, K., Wu, N. Y. H., White, A. J., Jendholm, L. J., Rivollier, A., Izarzugaza, J. M. G., Brunak, Søren, Holländer, G. A., Anderson, G., Sitnik, K. M. & Agace, W. W., 2018, In: Journal of Immunology. 201, 2, p. 524-532 9 p.Research output: Contribution to journal › Journal article › Research › peer-review
Report on EU-USA workshop: how systems biology can advance cancer research (27 October 2008)
Aebersold, R., Auffray, C., Baney, E., Barillot, E., Brazma, A., Brett, C., Brunak, S., Butte, A., Califano, A., Celis, J., Cufer, T., Ferrell, J., Galas, D., Gallahan, D., Gatenby, R., Goldbeter, A., Hace, N., Henney, A., Hood, L., Iyengar, R. & 28 others, , 2008, In: Molecular Oncology. 3, 1, p. 9-17 8 p.Research output: Contribution to journal › Journal article › Research › peer-review
- Published
Reply to 'Mining electronic health records: An additional perspective'
Jensen, P. B., Jensen, Lars Juhl & Brunak, Søren, 1 Jan 2013, In: Nature Reviews. Genetics. 14, 1 p.Research output: Contribution to journal › Comment/debate › Research › peer-review
- 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
- Published
Reduced vitamin D-induced cathelicidin production and killing of Mycobacterium tuberculosis in macrophages from a patient with a non-functional vitamin D receptor: A case report
Al-Jaberi, F. A. H., Crone, C. G., Lindenstrøm, T., Arildsen, Nicolai Skovbjerg, Lindeløv, E. S., Aagaard, L., Gravesen, E., Mortensen, R., Andersen, A. B., Ølgaard, Klaus, Hjaltelin, Jessica Xin, Brunak, Søren, Bonefeld, Charlotte Menne, Kongsbak-Wismann, Martin & Geisler, Carsten, 2022, In: Frontiers in Immunology. 13, 9 p., 1038960.Research output: Contribution to journal › Journal article › Research › peer-review
- Published
Rare variants with large effects provide functional insights into the pathology of migraine subtypes, with and without aura
Bjornsdottir, G., Chalmer, M. A., Stefansdottir, L., Skuladottir, A. T., Einarsson, G., Andresdottir, M., Beyter, D., Ferkingstad, E., Gretarsdottir, S., Halldorsson, B. V., Halldorsson, G. H., Helgadottir, A., Helgason, H., Hjorleifsson Eldjarn, G., Jonasdottir, A., Jonasdottir, A., Jonsdottir, I., Knowlton, K. U., Nadauld, L. D., Lund, S. H. & 30 others, , 2023, In: Nature Genetics. 55, 11, p. 1843-1853Research output: Contribution to journal › Journal article › Research › peer-review
- Published
Rare SLC13A1 variants associate with intervertebral disc disorder highlighting role of sulfate in disc pathology
Bjornsdottir, G., Stefansdottir, L., Thorleifsson, G., Sulem, P., Norland, K., Ferkingstad, E., Oddsson, A., Zink, F., Lund, S. H., Nawaz, M. S., Bragi Walters, G., Skuladottir, A. T., Gudjonsson, S. A., Einarsson, G., Halldorsson, G. H., Bjarnadottir, V., Sveinbjornsson, G., Helgadottir, A., Styrkarsdottir, U., Gudmundsson, L. J. & 26 others, , 2022, In: Nature Communications. 13, 13 p., 634.Research output: Contribution to journal › Journal article › Research › peer-review
- 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
- Published
Randomized Phase II Study of Nivolumab with or Without Ipilimumab Combined with Stereotactic Body Radiotherapy for Refractory Metastatic Pancreatic Cancer (CheckPAC)
Chen, I. M., Johansen, Julia Sidenius, Theile, S., Hjaltelin, Jessica Xin, Novitski, Sif Ingibergsdóttir, Brunak, Søren, Hasselby, Jane Preuss, Willemoe, G. L., Lorentzen, T., Madsen, K., Jensen, B. V., Wilken, E. E., Geertsen, P., Behrens, C., Nolsøe, Christian, Hermann, K. L., Svane, Inge Marie & Nielsen, Dorte Lisbet, 2022, In: Journal of Clinical Oncology. 40, 27, p. 3180-3189Research output: Contribution to journal › Journal article › Research › peer-review
- 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 PressResearch output: Chapter in Book/Report/Conference proceeding › Article in proceedings › Research › peer-review
- 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
- Published
Præcisionskardiologi
Haue, Amalie Dahl, Vissing, C. R., Tfelt-Hansen, Jacob, Brunak, Søren, Bundgård, Henning & Weeke, P. E., 1 Oct 2018, In: Ugeskrift for Laeger. 180, 20A, p. 1851-54Research output: Contribution to journal › Journal article › Research › peer-review
- 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
- Published
Protein interaction-based genome-wide analysis of incident coronary heart disease
Jensen, Majken Karoline, Pers, Tune H, Dworzynski, P., Girman, C. J., Brunak, Søren & Rimm, E. B., 2011, In: Circulation: Cardiovascular Genetics. 4, 5, p. 549-56 8 p.Research output: Contribution to journal › Journal article › Research › peer-review
- Published
Protein features as determinants of wild-type glycoside hydrolase thermostability
Geertz-Hansen, H. M., Kiemer, L., Nielsen, M., Stanchev, K., Blom, N., Brunak, Søren & Petersen, T. N., Nov 2017, In: Proteins: Structure, Function, and Bioinformatics. 85, 11, p. 2036-2044 9 p.Research output: Contribution to journal › Journal article › Research › peer-review
Protein feature based identification of cell cycle regulated proteins in yeast
de Lichtenberg, U., Jensen, T. S., Jensen, L. J. & Brunak, Søren, 2003, In: Journal of Molecular Biology. 329, 4, p. 663-74 12 p.Research output: Contribution to journal › Journal article › Research › peer-review
- Published
Protein annotation in the era of personal genomics
Blicher, T., Gupta, R., Wesolowska, A., Jensen, Lars Juhl & Brunak, Søren, 1 Jun 2010, In: Current Opinion in Structural Biology. 20, 3, p. 335-41 7 p.Research output: Contribution to journal › Journal article › Research › peer-review
- Published
Protective role of the vulture facial skin and gut microbiomes aid adaptation to scavenging
Zepeda Mendoza, M. L., Roggenbuck, M., Manzano Vargas, K., Hansen, L. H., Brunak, Søren, Gilbert, M Thomas P & Sicheritz-Pontén, Thomas, 2018, In: Acta Veterinaria Scandinavica. 60, 1, p. 1-19 19 p., 61.Research output: Contribution to journal › Journal article › Research › peer-review
- 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
- Published
Profiles of glucose metabolism in different prediabetes phenotypes, classified by fasting glycemia, 2-hour OGTT, glycated hemoglobin, and 1-hour OGTT: An IMI DIRECT study
Tura, A., Grespan, E., Göbl, C. S., Koivula, R. W., Franks, P. W., Pearson, E. R., Walker, M., Forgie, I. M., Giordano, G. N., Pavo, I., Ruetten, H., Dermitzakis, E. T., McCarthy, M. I., Pedersen, O., Schwenk, J. M., Adamski, J., De Masi, F., Tsirigos, K. D., Brunak, S., Viñuela, A. & 17 others, , 2021, In: Diabetes. 70, 6, db210227.Research output: Contribution to journal › Journal article › Research › peer-review
- Published
Processes Underlying Glycemic Deterioration in Type 2 Diabetes: An IMI DIRECT Study
Bizzotto, R., Jennison, C., Jones, A. G., Kurbasic, A., Tura, A., Kennedy, G., Bell, J. D., Thomas, E. L., Frost, G., Eriksen, R., Koivula, R. W., Brage, S., Kaye, J., Hattersley, A. T., Heggie, A., McEvoy, D., 't Hart, L. M., Beulens, J. W., Elders, P., Musholt, P. B. & 28 others, , 2021, In: Diabetes Care. 44, 2, p. 511-518 8 p.Research output: Contribution to journal › Journal article › Research › peer-review
- Published
Prenatal exposure to paracetamol/acetaminophen and precursor aniline impairs masculinisation of male brain and behaviour
Hay-Schmidt, Anders, Finkielman, O. T. E., Jensen, Benjamin Anderschou Holbech, Høgsbro, C. F., Holm, J. B., Johansen, K. H., Jensen, T. K., Andrade, A. M., Swan, S. H., Bornehag, C., Brunak, Søren, Jegou, B., Kristiansen, Karsten & Kristensen, D. M., 2017, In: Reproduction. 154, 2, p. 145-152 8 p.Research output: Contribution to journal › Journal article › Research › peer-review
- Published
Pregnancy-Associated Bleeding and Genetics: Five Sequence Variants in the Myometrium and Progesterone Signaling Pathway are associated with postpartum hemorrhage
Westergaard, D., Steinthorsdottir, V., Stefansdottir, L., Rohde, P. D., Wu, X., Geller, F., Tyrmi, J., Havulinna, A. S., Navais, P. S., Flatley, C., Ostrowski, S. R., Pedersen, O. B., Erikstrup, C., Sørensen, E., Mikkelsen, C., Brun, M. T., Jensen, B. A., Brodersen, T., Ullum, H., Magnus, P. & 8 others, , 2023, medRxiv, 51 p. (medRxiv).Research output: Working paper › Preprint › Research
- 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
- Published
Predictive utilities of lipid traits, lipoprotein subfractions and other risk factors for incident diabetes: a machine learning approach in the Diabetes Prevention Program
Diabetes Prevention Program Research Group, D. P. P. R. G., Mar 2021, In: B M J Open Diabetes Research & Care. 9, 1, 12 p., e001953.Research output: Contribution to journal › Journal article › Research › peer-review
- 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-S166Research output: Contribution to journal › Conference abstract in journal › Research
- Published
Prediction of pH-dependent aqueous solubility of druglike molecules
Hansen, N. T., Kouskoumvekaki, I., Jørgensen, Flemming Steen, Brunak, Søren & Jónsdóttir, S. O., 2012, In: Journal of Chemical Information and Modeling. 46, 6, p. 2601-2609 9 p.Research output: Contribution to journal › Journal article › Research › peer-review
- Published
Prediction of disease causing non-synonymous SNPs by the Artificial Neural Network Predictor NetDiseaseSNP
Johansen, M. B., Izarzugaza, J. M. G., Brunak, Søren, Petersen, T. N. & Gupta, R., Jul 2013, In: P L o S One. 8, 7, p. e68370Research output: Contribution to journal › Journal article › Research › peer-review
- 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
- Published
Predicting and elucidating the etiology of fatty liver disease: A machine learning modeling and validation study in the IMI DIRECT cohorts
Atabaki-Pasdar, N., Ohlsson, M., Viñuela, A., Frau, F., Pomares-Millan, H., Haid, M., Jones, A. G., Thomas, E. L., Koivula, R. W., Kurbasic, A., Mutie, P. M., Fitipaldi, H., Fernandez, J., Dawed, A. Y., Giordano, G. N., Forgie, I. M., McDonald, T. J., Rutters, F., Cederberg, H., Chabanova, E. & 30 others, , 2020, In: PLoS Medicine. 17, 6, 27 p., e1003149.Research output: Contribution to journal › Journal article › Research › peer-review
- 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
- Published
Precision mapping of the human O-GalNAc glycoproteome through SimpleCell technology
Steentoft, C., Vakhrushev, Sergey, Joshi, Hiren Jitendra, Kong, Y., Vester-Christensen, M. B., Schjoldager, Katrine Ter-Borch Gram, Lavrsen, K., Dabelsteen, Sally, Pedersen, N. B., da Silva, L. P. M., Gupta, R., Bennett, Eric Paul, Mandel, Ulla, Brunak, Søren, Wandall, Hans H., Levery, S. B. & Clausen, Henrik, 15 May 2013, In: E M B O Journal. 32, 10, p. 1478-1488 11 p.Research output: Contribution to journal › Journal article › Research › peer-review
- 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, , 2020, In: PLoS ONE. 15, 11, 11 p., e0242360.Research output: Contribution to journal › Journal article › Research › peer-review
- Published
Porcine transcriptome analysis based on 97 non-normalized cDNA libraries and assembly of 1,021,891 expressed sequence tags
Gorodkin, J., Cirera, S., Hedegaard, J., Gilchrist, M. J., Panitz, F., Jørgensen, C., Scheibye-Knudsen, K., Arvin, T., Lumholdt, S., Sawera, M., Green, T., Nielsen, B., Havgaard, J. H., Rosenkilde, C., Wang, J., Li, H., Li, R., Liu, B., Hu, S., Dong, W. & 16 others, , 2007, In: Genome Biology. 8, R45, p. R45 16 p.Research output: Contribution to journal › Journal article › Research › peer-review
- Published
Population-wide disease trajectories in ischaemic heart disease
Haue, Amalie Dahl, Jørgensen, Isabella Friis, Christensen, A. H. C., Simon, C. S., Haakonsen, M. L. H., Russo, F. R., Rodriguez, C. L. R., Orozco, A. A. O., Siggard, T. S., Banasik, Karina, Weeke, P. E. W., Westergaard, David, Moseley, P. L. M., Bundgård, Henning & Brunak, Søren, Oct 2019, In: European Heart Journal. 40, S1, p. 1214-1214 1 p.Research output: Contribution to journal › Conference abstract in journal › Research
- 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
- Published
Population-wide analysis of differences in disease progression patterns in men and women
Westergaard, David, Moseley, P., Sørup, Freja Karuna Hemmingsen, Baldi, P. & Brunak, Søren, 2019, In: Nature Communications. 10, 1, 14 p., 666.Research output: Contribution to journal › Journal article › Research › peer-review
- Published
Population-Based Characterization of Menstrual Migraine and Proposed Diagnostic Criteria
Chalmer, M. A., Kogelman, L. J. A., Ullum, H., Sørensen, E., Didriksen, Maria, Mikkelsen, S., Dinh, K. M., Brodersen, T., Nielsen, K. R., Bruun, M. T., Banasik, Karina, Brunak, Søren, Erikstrup, C., Pedersen, Ole Birger Vesterager, Ostrowski, Sisse Rye, Olesen, Jes & Hansen, Thomas Folkmann, 2023, In: JAMA network open. 6, 5, 12 p., e2313235.Research output: Contribution to journal › Journal article › Research › peer-review
ID: 12895347
Most downloads
-
2928
downloads
Identification of odorant-receptor interactions by global mapping of the human odorome
Research output: Contribution to journal › Journal article › Research › peer-review
Published -
2863
downloads
Porcine transcriptome analysis based on 97 non-normalized cDNA libraries and assembly of 1,021,891 expressed sequence tags
Research output: Contribution to journal › Journal article › Research › peer-review
Published -
1245
downloads
A human gut microbial gene catalogue established by metagenomic sequencing
Research output: Contribution to journal › Journal article › Research › peer-review
Published