Søren Brunak

2018

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 othersMeehan, T. F., von Mering, C., Muthas, D., Nguyen, D-T., Overington, J. P., Papadatos, G., Qin, J., Reich, C., Roth, B. L., Schürer, S. C., Simeonov, A., Sklar, L. A., Southall, N., Tomita, S., Tudose, I., Ursu, O., Vidovic, D., Waller, A., Westergaard, D., Yang, J. J. & Zahoránszky-Köhalmi, G., 2018, In: Nature Reviews. Drug Discovery. 17, 5, p. 317-332 16 p.

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

108 Citations (Scopus)

2017

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

Danish Pan Genome Consortium, Sørensen, L. M., Petersen, B., Sibbesen, J. A., Liu, S., Belling, K. G., Have, C. T., Bork-Jensen, J., Hansen, T., Krogh, A., Sørensen, T. I. A., Pedersen, O. B., Rasmussen, S., Kristiansen, K. & Brunak, S., Aug 2017, In: PLOS Genetics. 13, 8, p. e1006834

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

15 Citations (Scopus)

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 othersYe, 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, T., Bolund, L., Krogh, A., Sørensen, T. I. A., Pedersen, O. B., Gupta, R., Rasmussen, S., Børglum, A. D., Wang, J., Eiberg, H. R. L., Kristiansen, K., Brunak, S. & Schierup, M. H., Sept 2017, In: Genome Research. 27, 9, p. 1597-1607 11 p.

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

7 Citations (Scopus)

150 Downloads (Pure)

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

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

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

6 Citations (Scopus)

66 Downloads (Pure)

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, A., Skakkebæk, N. E., Brunak, S. & Meyts, E. R-D., 1 May 2017, In: Molecular Human Reproduction. 23, 5, p. 339-354 16 p.

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

5 Citations (Scopus)

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 othersDoré, J., Nielsen, H. B., Brunak, S., Raes, J., Hansen, T., Wang, J., Ehrlich, S. D., Bork, P., Pedersen, O. & MetaHIT consortium, 3 May 2017, In: Nature. 545, 116, 1 p., 22318.

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

21 Citations (Scopus)

Cutavirus in cutaneous malignant melanoma

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

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

13 Citations (Scopus)

60 Downloads (Pure)

Early differences in islets from prediabetic NOD mice: combined microarray and proteomic analysis

Crèvecoeur, I., Gudmundsdottir, V., Vig, S., Marques Câmara Sodré, F., D'Hertog, W., Fierro, A. C., Van Lommel, L., Gysemans, C., Marchal, K., Waelkens, E., Schuit, F., Brunak, S., Overbergh, L. & Mathieu, C., 1 Mar 2017, In: Diabetologia. 60, 3, p. 475-489 15 p.

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

18 Citations (Scopus)

Klinefelter syndrome comorbidities linked to increased X chromosome gene dosage and altered protein interactome activity

Belling, K., Russo, F., Jensen, A. B., Dalgaard, M. D., Westergaard, D., Rajpert-De Meyts, E., Skakkebæk, N. E., Juul, A. & Brunak, S., 1 Apr 2017, In: Human Molecular Genetics. 26, 7, p. 1219-1229 11 p.

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

35 Citations (Scopus)

75 Downloads (Pure)

Lapatinib potentiates cytotoxicity of YM155 in neuroblastoma via inhibition of the ABCB1 efflux transporter

Radic-Sarikas, B., Halasz, M., Huber, K. V. M., Winter, G. E., Tsafou, K. P., Papamarkou, T., Brunak, S., Kolch, W. & Superti-Furga, G., 1 Dec 2017, In: Scientific Reports. 7, 1, p. 3091

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

12 Citations (Scopus)

Legacy data sharing to improve drug safety assessment: the eTOX project

Sanz, F., Pognan, F., Steger-Hartmann, T., Díaz, C., Cases, M., Pastor, M., Marc, P., Wichard, J., Briggs, K., Watson, D. K., Kleinöder, T., Yang, C., Amberg, A., Beaumont, M., Brookes, A. J., Brunak, S., Cronin, M. T. D., Ecker, G. F., Escher, S., Greene, N., & 17 othersGuzmán, A., Hersey, A., Jacques, P., Lammens, L., Mestres, J., Muster, W., Northeved, H., Pinches, M., Saiz, J., Sajot, N., Valencia, A., van der Lei, J., Vermeulen, N. P. E., Vock, E., Wolber, G., Zamora, I. & eTOX, 28 Nov 2017, In: Nature Reviews. Drug Discovery. 16, 12, p. 811-812 2 p.

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

27 Citations (Scopus)

Mapping of 79 loci for 83 plasma protein biomarkers in cardiovascular disease

Folkersen, L., Fauman, E., Sabater-Lleal, M., Strawbridge, R. J., Frånberg, M., Sennblad, B., Baldassarre, D., Veglia, F., Humphries, S. E., Rauramaa, R., de Faire, U., Smit, A. J., Giral, P., Kurl, S., Mannarino, E., Enroth, S., Johansson, Å., Enroth, S. B., Gustafsson, S., Lind, L., & 13 othersLindgren, C. M., Morris, A. P., Giedraitis, V., Silveira, A., Franco-Cereceda, A., Tremoli, E., Gyllensten, U., Ingelsson, E., Brunak, S., Eriksson, P., Ziemek, D., Hamsten, A. & Mälarstig, A., Apr 2017, In: P L o S Genetics. 13, 4, 21 p., e1006706.

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

53 Citations (Scopus)

MicroRNAs, Regulatory Networks, and Comorbidities: Decoding Complex Systems

Russo, F., Belling, K., Jensen, A. B., Scoyni, F., Brunak, S. & Pellegrini, M., 2017, In: Methods in molecular biology (Clifton, N.J.). 1580, p. 281-295 15 p.

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

1 Citation (Scopus)

Nomenclature for alleles of the human carboxylesterase 1 gene

INDICES Consortium, 1 Jan 2017, In: Pharmacogenetics and Genomics. 27, 2, p. 78-80 3 p.

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

4 Citations (Scopus)

Pancreatic Islet Protein Complexes and Their Dysregulation in Type 2 Diabetes

Pedersen, H. K., Gudmundsdottir, V. & Brunak, S., 20 Apr 2017, In: Frontiers in Genetics. 8, 43.

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

11 Citations (Scopus)

85 Downloads (Pure)

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

Nguyen, D-T., Mathias, S., Bologa, C., Brunak, S., Fernandez, N., Gaulton, A., Hersey, A., Holmes, J., Jensen, L. J., Karlsson, A., Liu, G., Ma'ayan, A., Mandava, G., Mani, S., Mehta, S., Overington, J., Patel, J., Rouillard, A. D., Schürer, S., Sheils, T., & 10 othersSimeonov, A., Sklar, L. A., Southall, N., Ursu, O., Vidovic, D., Waller, A., Yang, J., Jadhav, A., Oprea, T. I. & Guha, R., 1 Jan 2017, In: Nucleic Acids Research. 45, D1, p. D995–D1002

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

94 Citations (Scopus)

Phosphoproteomics of Primary Cells Reveals Druggable Kinase Signatures in Ovarian Cancer

Francavilla, C., Lupia, M., Tsafou, K., Villa, A., Kowalczyk, K., Rakownikow Jersie-Christensen, R., Bertalot, G., Confalonieri, S., Brunak, S., Jensen, L. J., Cavallaro, U. & Olsen, J. V., 28 Mar 2017, In: Cell Reports. 18, 13, p. 3242-3256 15 p.

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

45 Citations (Scopus)

214 Downloads (Pure)

Prenatal exposure to paracetamol/acetaminophen and precursor aniline impairs masculinisation of male brain and behaviour

Hay-Schmidt, A., Finkielman, O. T. E., Jensen, B. A. H., Høgsbro, C. F., Holm, J. B., Johansen, K. H., Jensen, T. K., Andrade, A. M., Swan, S. H., Bornehag, C-G., Brunak, S., Jegou, B., Kristiansen, K. & Kristensen, D. M., 2017, In: Reproduction. 154, 2, p. 145-152 8 p.

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

21 Citations (Scopus)

Protein features as determinants of wild-type glycoside hydrolase thermostability

Geertz-Hansen, H. M., Kiemer, L., Nielsen, M., Stanchev, K., Blom, N., Brunak, S. & 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

3 Citations (Scopus)

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 othersSun, J., Cao, H., Ye, C., van Beusekom, J., Espeseth, T., Flindt, E., Friborg, R. M., Halager, A. E., Le Hellard, S., Hultman, C. M., Lescai, F., Li, S., Lund, O., Løngren, P., Mailund, T., 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, T., Krogh, A., Bolund, L., Sørensen, T. I. A., Pedersen, O. B., Gupta, R., Rasmussen, S., Besenbacher, S., Børglum, A. D., Wang, J., Eiberg, H. R. L., Kristiansen, K., Brunak, S. & Schierup, M. H., 3 Aug 2017, In: Nature. 548, 7665, p. 87-91 5 p.

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

52 Citations (Scopus)

291 Downloads (Pure)

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

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

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

4 Citations (Scopus)

57 Downloads (Pure)

2016

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 othersEriksson, A., Margaryan, A., Moltke, I., Pugach, I., Korneliussen, T. S., Levkivskyi, I. P., Moreno Mayar, J. V., Ni, S., Racimo, F., Sikora, M., Xue, Y., Aghakhanian, F. A., Brucato, N., Brunak, S., 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-X., 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, R., Sandhu, M. S., Excoffier, L., Lambert, D. M. & Willerslev, E., 2016, In: Nature. 538, 7624, p. 207-214 8 p.

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

186 Citations (Scopus)

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 othersHalfvarson, J., Jensen, A. B., Lieb, W., Degenhardt, F., Forstner, A. J., Hofmann, A., Schreiber, S., Mrowietz, U., Juran, B. D., Lazaridis, K. N., Brunak, S., 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), 1 May 2016, In: Nature Genetics. 48, 5, p. 510-521 12 p.

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

292 Citations (Scopus)

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, S., Jensen, T. S. & Hansen, K. L., 29 Dec 2016, In: Nature Methods. 14, 1, p. 61–64

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

191 Citations (Scopus)

ChemProt-3.0: a global chemical biology diseases mapping

Kringelum, J. V., Kjærulff, S. K., Brunak, S., 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

45 Citations (Scopus)

131 Downloads (Pure)

Diagnosis trajectories of prior multi-morbidity predict sepsis mortality

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

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

38 Citations (Scopus)

Familial Atrial Septal Defect and Sudden Cardiac Death: Identification of a Novel NKX2-5 Mutation and a Review of the Literature

Ellesøe, S. G., Johansen, M. M., Bjerre, J. V., Hjortdal, V. E., Brunak, S. & Larsen, L. A., 1 May 2016, In: Congenital Heart Disease. 11, 3, p. 283–290 8 p.

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

40 Citations (Scopus)

How Suitable Are Registry Data for Recurrence Risk Calculations? Validation of Diagnoses on 1,593 Families With Congenital Heart Disease

Ellesøe, S. G., Jensen, A. B., Ängquist, L. H., Hjortdal, V. E., Larsen, L. A. & Brunak, S., 1 Mar 2016, In: World journal for pediatric & congenital heart surgery. 7, 2, p. 169-77 9 p.

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

3 Citations (Scopus)

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 othersJørgensen, T., Holm, J. B., Trošt, K., Kristiansen, K., Brix, S., Raes, J., Wang, J., Hansen, T., Bork, P., Brunak, S., Oresic, M., Ehrlich, S. D., Pedersen, O. B. & MetaHIT Consortium, 13 Jul 2016, In: Nature. 535, 7612, p. 376-381 6 p.

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

699 Citations (Scopus)

Identification of known and novel recurrent viral sequences in data from multiple patients and multiple cancers

Friis-Nielsen, J., Kjartansdóttir, K. R., Mollerup, S., Asplund, M., Mourier, T., Jensen, R. H., Hansen, T. A., Rey de la Iglesia, A., Richter, S. R., Nielsen, I. B., Alquezar Planas, D. E., Olsen, P. V. S., Vinner, L., Fridholm, E. M. H., Nielsen, L. P., Willerslev, E., Sicheritz-Pontén, T., Lund, O., Hansen, A. J., Izarzugaza, J. M. G., & 1 othersBrunak, S., 1 Feb 2016, In: Viruses. 8, 2, 16 p., 53.

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

8 Citations (Scopus)

114 Downloads (Pure)

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

Orozco, A. A., Audouze, K., Brunak, S. & Taboureau, O., 1 Dec 2016, In: Current Pharmaceutical Design. 22, 46, p. 6895-6902 8 p.

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

2 Citations (Scopus)

47 Downloads (Pure)

Integration of known DNA, RNA and protein biomarkers provides prediction of anti-TNF response in rheumatoid arthritis: results from the COMBINE study

Folkersen, L., Brynedal, B., Diaz-Gallo, L. M., Ramsköld, D., Shchetynsky, K., Westerlind, H., Sundström, Y., Schepis, D., Hensvold, A., Vivar, N., Eloranta, M-L., Rönnblom, L., Brunak, S., Malmström, V., Catrina, A. I., Mørch, U. G., Klareskog, L., Padyukov, L. & Berg, L., 2016, In: Molecular medicine (Cambridge, Mass.). 22, p. 3223328

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

17 Citations (Scopus)

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

Nzabonimpa, G. S., Rasmussen, H. B., Brunak, S., Taboureau, O. & INDICES Consortium, 1 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

3 Citations (Scopus)

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

Pons, T., Vazquez, M., Matey-Hernandez, M. L., Brunak, S., 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

7 Citations (Scopus)

Network biology concepts in complex disease comorbidities

Hu, J. X., Thomas, C. E. & Brunak, S., 1 Oct 2016, In: Nature Reviews. Genetics. 17, p. 615–629

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

137 Citations (Scopus)

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

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

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

46 Citations (Scopus)

90 Downloads (Pure)

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, S. & Gupta, R., 26 Oct 2016, In: npj Genomic Medicine. 1, 16035.

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

5 Citations (Scopus)

83 Downloads (Pure)

TEMPORAL ORDER OF DISEASE PAIRS AFFECTS SUBSEQUENT DISEASE TRAJECTORIES: THE CASE OF DIABETES AND SLEEP APNEA

Beck, M. K., Westergaard, D., Jensen, A. B., Groop, L. & Brunak, S., 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

8 Citations (Scopus)

The hunt for fatal myocardial infarction biomarkers: predictive circulating microRNAs

Russo, F., Rizzo, M., Belling, K., Brunak, S. & Folkersen, L., Oct 2016, In: Journal of Translational Medicine. 4, Suppl 1, 4 p., S1.

Research output: Contribution to journal › Editorial

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 othersDogan, T., Doppelt-Azeroual, O., Emery, L., Gasteiger, E., Gatter, T., Goldberg, T., Grosjean, M., Grüning, B., Helmer-Citterich, M., Ienasescu, H-I., Ioannidis, V., Jespersen, M. C., Jimenez, R., Juty, N., Juvan, P., Koch, M., Laibe, C., Li, J-W., Licata, L., Mareuil, F., Mičetić, I., Friborg, R. M., Moretti, S., Morris, C., Möller, S., Nenadic, A., Peterson, H., Profiti, G., Rice, P., Romano, P., Roncaglia, P., Saidi, R., Schafferhans, A., Schwämmle, V., Smith, C., Sperotto, M. M., Stockinger, H., Vařeková, R. S., Tosatto, S. C. E., de la Torre, V., Uva, P., Via, A., Yachdav, G., Zambelli, F., Vriend, G., Rost, B., Parkinson, H., Løngreen, P. & Brunak, S., 4 Jan 2016, In: Nucleic Acids Research. 44, D1, p. D38-D47 10 p.

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

73 Citations (Scopus)

58 Downloads (Pure)

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 othersEhrlich, S. D., Sicheritz-Pontén, T., Brunak, S. & Nielsen, H. B., 26 Aug 2016, In: Nature Microbiology. 1, p. 1-6 6 p., 16152.

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

29 Citations (Scopus)

wKinMut-2: Identification and Interpretation of Pathogenic Variants in Human Protein Kinases

Vazquez, M., Pons, T., Brunak, S., Valencia, A. & Izarzugaza, J. M. G., 1 Jan 2016, In: Human Mutation. 37, 1, p. 36-42 7 p.

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

5 Citations (Scopus)

2015

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, S., Mathieu, C. & Overbergh, L., 1 Oct 2015, In: Proteomics - Clinical Applications. 9, 9-10, p. 938–952 15 p.

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

4 Citations (Scopus)

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., Yvonne Voigt, A., Vestergaard, H., Hercog, R., Igor Costea, P., Roat Kultima, J., Li, J., Jørgensen, T., Levenez, F., & 9 othersDore, J., Nielsen, H. B., Brunak, S., Raes, J., Hansen, T., Wang, J., Dusko Ehrlich, S., Bork, P. & Pedersen, O. B., 10 Dec 2015, In: Nature. 528, 7581, p. 262-266 5 p.

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

856 Citations (Scopus)

Early divergent strains of Yersinia pestis in Eurasia 5,000 years ago

Rasmussen, S., Allentoft, M. E., Nielsen, K., Orlando, L. A. A., Sikora, M., Sjögren, K-G., Pedersen, A. G., Schubert, M., Van Dam, A., Kapel, C. M. O., Nielsen, H. B., Brunak, S., Avetisyan, P., Epimakhov, A., Khalyapin, M. V., Gnuni, A., Kriiska, A., Lasak, I., Metspalu, M., Moiseyev, V., & 11 othersGromov, A., Pokutta, D., Saag, L., Varul, L., Yepiskoposyan, L., Sicheritz-Ponten, T., Foley, R. A., Lahr, M. M., Nielsen, R., Kristiansen, K. & Willerslev, E., 22 Oct 2015, In: Cell. 163, 3, p. 571-582 12 p.

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

222 Citations (Scopus)

183 Downloads (Pure)

Individualization of treatments with drugs metabolized by CES1: combining genetics and metabolomics

Rasmussen, H. B., Bjerre, D., Linnet, K., Jürgens, G., Dalhoff, K., Stefansson, H., Hankemeier, T., Kaddurah-Daouk, R., Taboureau, O., Brunak, S., Houmann, T., Jeppesen, P., Pagsberg, A. K., Plessen, K., Dyrborg, J., Hansen, P. R., Hansen, P. E., Hughes, T., Werge, T. & INDICES Consortium, 1 Apr 2015, In: Pharmacogenomics. 16, 6, p. 649-65

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

20 Citations (Scopus)

Investigation of human cancers for retrovirus by low-stringency target enrichment and high-throughput sequencing

Vinner, L., Mourier, T., Friis-Nielsen, J., Gniadecki, R., Dybkaer, K., Rosenberg, J., Langhoff, J. L., Flores Santa Cruz, D., Fonager, J., Izarzugaza, J. M. G., Gupta, R., Sicheritz-Ponten, T., Brunak, S., Willerslev, E., Nielsen, L. P. & Hansen, A. J., 19 Aug 2015, In: Scientific Reports. 5, 13 p., 13201.

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

26 Citations (Scopus)

119 Downloads (Pure)

Long-term risk of cardiovascular and cerebrovascular disease after removal of the colonic microbiota by colectomy: a cohort study based on the Danish National Patient Register from 1996 to 2014

Jensen, A. B., Ajslev, T. A., Brunak, S. & Sørensen, T. I. A., 15 Dec 2015, In: B M J Open. 5, 8 p., e008702.

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

5 Citations (Scopus)

Novel variation and de novo mutation rates in population-wide de novo assembled Danish trios

Besenbacher, S., Liu, S., Gonzalez-Izarzugaza, J. M., Grove, J., Belling, K. G., Bork-Jensen, J., Huang, S., Als, T. D., Li, S., Yadav, R., Rubio García, A., Lescai, F., Demontis, D., Rao, J., Ye, W., Mailund, T., Møllegaard Friborg, R., Pedersen, C. N. S., Xu, R., Sun, J., & 27 othersLiu, H., Wang, O., Cheng, X., Flores, D., Rydza, E. K., Rapacki, K., Sørensen, J. D., Chmura, P. J., Westergaard, D., Dworzynski, P., Sørensen, T. I. A., Lund, O., Hansen, T., Xu, X., Li, N., Bolund, L., Pedersen, O., Eiberg, H., Krogh, A., Børglum, A. D., Brunak, S., Kristiansen, K., Schierup, M. H., Wang, J., Gupta, R., Villesen, P. & Rasmussen, S., Jan 2015, In: Nature Communications. 6, 9 p., 5969.

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

90 Citations (Scopus)

122 Downloads (Pure)

Population genomics of bronze age Eurasia

Allentoft, M. E., Sikora, M., Sjogren, K-G., Rasmussen, S., Rasmussen, M., Stenderup, J., Damgaard, P. D. B., Schroeder, H., Ahlstrom, T., Vinner, L., Malaspinas, A. S., Margaryan, A., Higham, T., Chivall, D., Lynnerup, N., Harvig, L. L., Baron, J., Della Casa, P., Dabrowski, P., Duffy, P. R., & 46 othersEbel, A. V., Epimakhov, A., Frei, K., Furmanek, M., Gralak, T., Gromov, A., Gronkiewicz, S., Grupe, G., Hajdu, T., Jarysz, R., Khartanovich, V., Khokhlov, A., Kiss, V., Kolar, J., Kriiska, A., Lasak, I., Longhi, C., McGlynn, G., Merkevicius, A., Merkyte, I., Metspalu, M., Mkrtchyan, R., Moiseyev, V., Paja, L., Palfi, G., Pokutta, D., Pospieszny, L., Price, T. D., Saag, L., Sablin, M., Shishlina, N., Smrcka, V., Soenov, V. I., Szeverenyi, V., Toth, G., Trifanova, S. V., Varul, L., Vicze, M., Yepiskoposyan, L., Zhitenev, V., Orlando, L. A. A., Sicheritz-Ponten, T., Brunak, S., Nielsen, R., Kristiansen, K. & Willerslev, E., 10 Jun 2015, In: Nature Genetics. 522, 7555, p. 167-172 6 p.

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

617 Citations (Scopus)

Søren Brunak

Research output

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