Søren Brunak
Professor
Brunak Group
Blegdamsvej 3B
2200 København N
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Modeling of waning immunity after SARS-CoV-2 vaccination and influencing factors
Pérez-Alós, L., Armenteros, J. J. A., Madsen, J. R., Hansen, C. B., Jarlhelt, I., Hamm, S. R., Heftdal, L. D., Pries-Heje, M. M., Møller, D. L., Fogh, K., Hasselbalch, R. B., Rosbjerg, A., Brunak, S., Sørensen, E., Larsen, M. A. H., Ostrowski, S. R., Frikke-Schmidt, R., Bayarri-Olmos, R., Hilsted, L. M., Iversen, K. K. & 3 others, , 2022, In: Nature Communications. 13, 1, 11 p., 1614.Research output: Contribution to journal › Journal article › Research › peer-review
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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
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KinMutRF: a random forest classifier of sequence variants in the human protein kinase superfamily
Pons, T., Vazquez, M., Matey-Hernandez, M. L., Brunak, Søren, Valencia, A. & Izarzugaza, J. M., 23 Jun 2016, In: BMC Genomics. 17, Suppl 2, 11 p., 396.Research output: Contribution to journal › Journal article › Research › peer-review
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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
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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, , 2023, In: Nature Medicine. 29, p. 1113-1122Research output: Contribution to journal › Journal article › Research › peer-review
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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
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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
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Meta-analysis of heterogeneous data sources for genome-scale identification of risk genes in complex phenotypes
Pers, T. H., Hansen, N. T., Hansen, K. L., Koefoed, P., Dworzynski, P., Miller, M. L., Flint, T. J., Mellerup, E., Dam, H., Andreassen, O. A., Djurovic, S., Melle, I., Børglum, A. D., Werge, T., Purcell, S., Ferreira, M. A., Kouskoumvekaki, I., Workman, C., Hansen, T., Mors, O. & 1 others, , 11 Apr 2011, In: Genetic Epidemiology. 35, 5, p. 318-332 5 p.Research output: Contribution to journal › Journal article › Research › peer-review
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MetaRanker 2.0: a web server for prioritization of genetic variation data
Pers, T. H., Dworzynski, P., Thomas, C. E., Hansen, K. L. & Brunak, Søren, 1 Jul 2013, In: Nucleic Acids Research. 41, W1, p. W104-W108Research output: Contribution to journal › Journal article › Research › peer-review
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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
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Pancreatic Islet Protein Complexes and Their Dysregulation in Type 2 Diabetes
Pedersen, H. K., Gudmundsdottir, V. & Brunak, Søren, 2017, In: Frontiers in Genetics. 8, 43.Research output: Contribution to journal › Journal article › Research › peer-review
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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
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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
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Human gut microbes impact host serum metabolome and insulin sensitivity
Pedersen, H. K., Gudmundsdottir, V., Nielsen, H. B., Hyotylainen, T., Nielsen, T., Jensen, B. A. H., Forslund, K., Hildebrand, F., Prifti, E., Falony, G., Le Chatelier, E., Levenez, F., Doré, J., Mattila, I., Plichta, D. R., Pöhö, P., Hellgren, L. I., Arumugam, M., Sunagawa, S., Vieira-Silva, S. & 14 others, , 2016, In: Nature. 535, 7612, p. 376-381 6 p.Research output: Contribution to journal › Journal article › Research › peer-review
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
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ImmunoGrid, an integrative environment for large-scale simulation of the immune system for vaccine discovery, design and optimization
Pappalardo, F., Halling-Brown, M. D., Rapin, N., Zhang, P., Alemani, D., Emerson, A., Paci, P., Duroux, L. P., Pennisi, M., Palladini, A., Miotto, O., Churchill, D., Rossi, E., Shepherd, A. J., Moss, D. S., Castiglione, F., Bernaschi, M., Lefranc, M-P., Brunak, S., Motta, S. & 3 others, , 2009, In: Briefings in Bioinformatics. 10, 3, p. 330-40 11 p.Research output: Contribution to journal › Journal article › Research › peer-review
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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
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Integrative pathway enrichment analysis of multivariate omics data
Paczkowska, M., Barenboim, J., Sintupisut, N., Fox, N. S., Zhu, H., Abd-Rabbo, D., Mee, M. W., Boutros, P. C., Abascal, F., Amin, S. B., Bader, G. D., Beroukhim, R., Bertl, J., Boroevich, K. A., Brunak, S., Campbell, P. J., Carlevaro-Fita, J., Chakravarty, D., Chan, C. W. Y., Chen, K. & 30 others, , 5 Feb 2020, In: Nature Communications. 11, 1, 735.Research output: Contribution to journal › Journal article › Research › peer-review
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In Silico Systems Pharmacology to Assess Drug's Therapeutic and Toxic Effects
Orozco, A. A., Audouze, K., Brunak, Søren & Taboureau, O., 2016, In: Current Pharmaceutical Design. 22, 46, p. 6895-6902 8 p.Research output: Contribution to journal › Journal article › Research › peer-review
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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
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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
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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, , 2023, In: Nature Communications. 14, 15 p., 3453.Research output: Contribution to journal › Journal article › Research › peer-review
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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
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Investigating the impact of missense mutations in hCES1 by in silico structure-based approaches
Nzabonimpa, G. S., Rasmussen, Henrik Berg, Brunak, Søren, Taboureau, O. & INDICES Consortium, I. C., Jun 2016, In: Drug Metabolism and Personalized Therapy. 31, 2, p. 97-106 10 p.Research output: Contribution to journal › Journal article › Research › peer-review
ID: 12895347
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Identification of odorant-receptor interactions by global mapping of the human odorome
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Porcine transcriptome analysis based on 97 non-normalized cDNA libraries and assembly of 1,021,891 expressed sequence tags
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A human gut microbial gene catalogue established by metagenomic sequencing
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