DTU Sundhedsteknologi
DTU Bioinformatik
Søren Brunak

Søren Brunak

Professor

Department of Health Technology

Technical University of Denmark

Kemitorvet

Building 208, room 016

2800 Kgs. Lyngby

Ph.
Ph.
Fax +4545 93 15 85
E-mail sobr@dtu.dk
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2019
 

A Brief History of Protein Sorting Prediction

Nielsen, Henrik ; Tsirigos, Konstantinos D. ; Brunak, Søren ; von Heijne, Gunnar
in: Protein Journal, vol: 38, issue: 3, pages: 200-216

Type: Journal article (Peer reviewed)

Status: Published     |    Year: 2019     |    DOI: https://doi.org/10.1007/s10930-019-09838-3

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

Jiang, Li ; Audouze, Karine ; Romero Herrera, Jose Alejandro ; Ängquist, Lars Henrik ; Kjærulff, Sonny Kim ; Izarzugaza, Jose M.G. ; Tjønneland, Anne ; Halkjær, Jytte ; Overvad, Kim ; Sørensen, Thorkild I.A. ; Brunak, Søren
in: Clinical Nutrition

Type: Journal article (Peer reviewed)

Status: Accepted/In press     |    Year: 2019     |    DOI: https://doi.org/10.1016/j.clnu.2019.02.003

 

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

Asplund, Maria ; Kjartansdóttir, Kristín Rós ; Mollerup, Sarah ; Vinner, Lasse ; Fridholm, Helena ; Herrera, José A. R. ; Friis-Nielsen, Jens ; Hansen, Thomas Arn ; Jensen, Randi Holm ; Nielsen, Ida Broman ; Richter, Stine Raith ; Rey-Iglesia, Alba ; Matey-Hernandez, Maria Luisa ; Alquezar-Planas, David E. ; Olsen, Pernille V. S. ; Sicheritz-Pontén, Thomas ; Willerslev, Eske ; Lund, Ole ; Brunak, Søren ; Mourier, Tobias ; Nielsen, Lars Peter ; Izarzugaza, Jose M. G. ; Hansen, Anders Johannes
in: Clinical Microbiology and Infection

Type: Journal article (Peer reviewed)

Status: Accepted/In press     |    Year: 2019     |    DOI: https://doi.org/10.1016/j.cmi.2019.04.028

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

Koivula, Robert W. ; Forgie, Ian M. ; Kurbasic, Azra ; Viñuela, Ana ; Heggie, Alison ; Giordano, Giuseppe N. ; Hansen, Tue H. ; Hudson, Michelle ; Koopman, Anitra D. M. ; Rutters, Femke ; Siloaho, Maritta ; Allin, Kristine H. ; Brage, Søren ; Brorsson, Caroline A. ; Dawed, Adem Y. ; De Masi, Federico ; Groves, Christopher J. ; Kokkola, Tarja ; Mahajan, Anubha ; Perry, Mandy H. ; Rauh, Simone P. ; Ridderstråle, Martin ; Teare, Harriet J. A. ; Thomas, E. Louise ; Tura, Andrea ; Vestergaard, Henrik ; White, Tom ; Adamski, Jerzy ; Bell, Jimmy D. ; Beulens, Joline W. ; Brunak, Søren ; Dermitzakis, Emmanouil T. ; Froguel, Philippe ; Frost, Gary ; Gupta, Ramneek ; Hansen, Torben ; Hattersley, Andrew ; Jablonka, Bernd ; Kaye, Jane ; Laakso, Markku ; McDonald, Timothy J. ; Pedersen, Oluf ; Schwenk, Jochen M. ; Pavo, Imre ; Mari, Andrea ; McCarthy, Mark I. ; Ruetten, Hartmut ; Walker, Mark ; Pearson, Ewan ; Franks, Paul W. ; ,
in: Diabetologia, vol: 62, issue: 9, pages: 1601-1615

Type: Journal article (Peer reviewed)

Status: Published     |    Year: 2019     |    DOI: https://doi.org/10.1007/s00125-019-4906-1

 

High-throughput sequencing-based investigation of viruses in human cancers by multi-enrichment approach

Mollerup, Sarah ; Asplund, Maria ; Friis-Nielsen, Jens ; Kjartansdóttir, Kristín Rós ; Fridholm, Helena ; Hansen, Thomas Arn ; Herrera, José Alejandro Romero ; Barnes, Christopher James ; Jensen, Randi Holm ; Richter, Stine Raith ; Nielsen, Ida Broman ; Pietroni, Carlotta ; Alquezar-Planas, David E. ; Rey-Iglesia, Alba ; Olsen, Pernille V. S. ; Rajpert-De Meyts, Ewa ; Groth-Pedersen, Line ; von Buchwald, Christian ; Jensen, David H. ; Gniadecki, Robert ; Høgdall, Estrid ; Langhoff, Jill Levin ; Pete, Imre ; Vereczkey, Ildikó ; Baranyai, Zsolt ; Dybkaer, Karen ; Johnsen, Hans Erik ; Steiniche, Torben ; Hokland, Peter ; Rosenberg, Jacob ; Baandrup, Ulrik ; Sicheritz-Pontén, Thomas ; Willerslev, Eske ; Brunak, Søren ; Lund, Ole ; Mourier, Tobias ; Vinner, Lasse ; Izarzugaza, Jose M. G. ; Nielsen, Lars Peter ; Hansen, Anders Johannes
in: Journal of Infectious Diseases

Type: Journal article (Peer reviewed)

Status: Accepted/In press     |    Year: 2019     |    DOI: https://doi.org/10.1093/infdis/jiz318

 

SignalP 5.0 improves signal peptide predictions using deep neural networks

Almagro Armenteros, Jose Juan ; Tsirigos, Konstantinos D. ; Sønderby, Casper Kaae ; Petersen, Thomas Nordahl ; Winther, Ole ; Brunak, Søren ; von Heijne, Gunnar ; Nielsen, Henrik
in: Nature Biotechnology, vol: 37, pages: 420-423

Type: Journal article (Peer reviewed)

Status: Published     |    Year: 2019     |    DOI: https://doi.org/10.1038/s41587-019-0036-z

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The bio.tools registry of software tools and data resources for the life sciences

Ison, Jon ; Ienasescu, Hans ; Chmura, Piotr Jaroslaw ; Rydza, Emil Karol ; Menager, Herve ; Kalaš, Matuš ; Schwammle, Veit ; Gruning, Björn ; Beard, Niall ; Lopez, Rodrigo ; Duvaud, Severine ; Stockinger, Heinz ; Persson, Bengt ; Vařekova, Radka Svobodova ; Raček, Tomaš ; Vondrašek, Jiři ; Peterson, Hedi ; Salumets, Ahto ; Jonassen, Inge ; Hooft, Rob ; Nyronen, Tommi ; Valencia, Alfonso ; Capella, Salvador ; Gelpi, Josep ; Zambelli, Federico ; Savakis, Babis ; Leskošek, Brane ; Rapacki, Kristoffer ; Blanchet, Christophe ; Jimenez, Rafael ; Oliveira, Arlindo ; Vriend, Gert ; Collin, Olivier ; Van Helden, Jacques ; Løngreen, Peter ; Brunak, Søren
in: Genome Biology, vol: 20, issue: 1

Type: Journal article (Peer reviewed)

Status: Published     |    Year: 2019     |    DOI: https://doi.org/10.1186/s13059-019-1772-6

2018
 

Accurate genotyping across variant classes and lengths using variant graphs

Sibbesen, Jonas Andreas ; Maretty, Lasse ; Jensen, Jacob Malte ; Petersen, Bent ; Liu, Siyang ; Villesen, Palle ; Skov, Laurits ; Belling, Kirstine ; Theil Have, Christian ; Gonzalez-Izarzugaza, Jose Maria ; Grosjean, Marie ; Bork-Jensen, Jette ; Grove, Jakob ; Dam-Als, Thomas ; Huang, Shujia ; Chang, Yuqi ; Xu, Ruiqi ; Ye, Weijian ; Rao, Junhua ; Guo, Xiaosen ; Sun, Jihua ; Cao, Hongzhi ; Ye, Chen ; van Beusekom, Johan ; Espeseth, Thomas ; Flindt, Esben ; Friborg, Rune M. ; Halager, Anders Egerup ; Le Hellard, Stephanie ; Hultman, Christina M. ; Lescai, Francesco ; Li, Shengting ; Lund, Ole ; Løngren, Peter ; Mailund, Thomas ; Matey-Hernandez, María Luisa ; Mors, Ole ; Pedersen, Christian N. S. ; Sicheritz-Pontén, Thomas ; Sullivan, Patrick ; Ali , Syed ; Westergaard, David ; Yadav, Rachita ; Li, Ning ; Xu, Xun ; Hansen, Torben ; Krogh, Anders ; Bolund, Lars ; Sørensen, Thorkild I. A. ; Pedersen, Oluf ; Gupta, Ramneek ; Rasmussen, Simon ; Besenbacher, Søren ; Børglum, Anders D. ; Wang, Jun ; Eiberg, Hans ; Kristiansen, Karsten ; Brunak, Søren ; Schierup, Mikkel Heide
in: Nature Genetics

Type: Journal article (Peer reviewed)

Status: Published     |    Year: 2018     |    DOI: https://doi.org/10.1038/s41588-018-0145-5

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

Westergaard, David ; Stærfeldt, Hans Henrik ; Tønsberg, Christian ; Jensen, Lars Juhl ; Brunak, Søren
in: P L o S Computational Biology (Online), vol: 14, issue: 2

Type: Journal article (Peer reviewed)

Status: Published     |    Year: 2018     |    DOI: https://doi.org/10.1371/journal.pcbi.1005962

 

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

Pedersen, Helle Krogh ; Forslund, Sofia K ; Gudmundsdottir, Valborg ; Petersen, Anders Østergaard ; Hildebrand, Falk ; Hyötyläinen, Tuulia ; Nielsen, Trine ; Hansen, Torben ; Bork, Peer ; Ehrlich, S Dusko ; Brunak, Søren ; Oresic, Matej ; Pedersen, Oluf ; Nielsen, Henrik Bjørn
in: Nature Protocols, vol: 13, pages: 2781-2800

Type: Journal article (Peer reviewed)

Status: Published     |    Year: 2018     |    DOI: https://doi.org/10.1038/s41596-018-0064-z