Thomas Sicheritz-Pontén

Thomas Sicheritz-Pontén

Professor

DTU BIOINFORMATIK
Institut for Bio- og Sundhedsinformatik

Danmarks Tekniske Universitet

Kemitorvet

Bygning 208, rum 021

2800 Kgs. Lyngby

Hjemmeside

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Publikationer
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2019
 

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     |    År: 2019     |    DOI: https://doi.org/10.1093/infdis/jiz318

  PDF

Whole grain-rich diet reduces body weight and systemic low-grade inflammation without inducing major changes of the gut microbiome: a randomised cross-over trial

Roager, Henrik Munch ; Vogt, Josef Korbinian ; Kristensen, Mette ; Hansen, Lea Benedicte S ; Ibrügger, Sabine ; Mærkedahl, Rasmus B ; Bahl, Martin Iain ; Lind, Mads Vendelbo ; Nielsen, Rikke Linnemann ; Frøkiær, Hanne ; Gøbel, Rikke Juul ; Landberg, Rikard ; Ross, Alastair B ; Brix, Susanne ; Holck, Jesper ; Meyer, Anne S. ; Sparholt, Morten H ; Christensen, Anders F ; Carvalho, Vera ; Holst, Jens Juul ; Rumessen, Jüri Johannes ; Linneberg, Allan ; Sicheritz-Pontén, Thomas ; Dalgaard, Marlene Danner ; Blennow, Andreas ; Frandsen, Henrik Lauritz ; Villas-Bôas, Silas Granato ; Kristiansen, Karsten ; Vestergaard, Henrik ; Hansen, Torben ; Ekstrøm, Claus T ; Ritz, Christian ; Nielsen, Henrik Bjørn ; Pedersen, Oluf Borbye ; Gupta, Ramneek ; Lauritzen, Lotte ; Licht, Tine Rask
in: Gut, vol: 68, issue: 1, pages: 83-93

Type: Journal article (Peer reviewed)

Status: Published     |    År: 2019     |    DOI: https://doi.org/10.1136/gutjnl-2017-314786

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     |    År: 2018     |    DOI: https://doi.org/10.1038/s41588-018-0145-5

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A low-gluten diet induces changes in the intestinal microbiome of healthy Danish adults

Hansen, Lea B. S. ; Roager, Henrik M. ; Søndertoft, Nadja B. ; Gøbel, Rikke J. ; Kristensen, Mette ; Vallès-Colomer, Mireia ; Vieira-Silva, Sara ; Ibrügger, Sabine ; Lind, Mads V. ; Mærkedahl, Rasmus B. ; Bahl, Martin Iain ; Madsen, Mia L ; Havelund, Jesper ; Falony, Gwen ; Tetens, Inge ; Nielsen, Trine ; Allin, Kristine H. ; Frandsen, Henrik L ; Hartmann, Bolette ; Holst, Jens Juul ; Sparholt, Morten H. ; Holck, Jesper ; Blennow, Andreas ; Moll, Janne Marie ; Meyer, Anne S. ; Hoppe, Camilla ; Poulsen, Jørgen H. ; Carvalho, Vera ; Sagnelli, Domenico ; Dalgaard, Marlene Danner ; Christensen, Anders F. ; Lydolph, Magnus Christian ; Ross, Alastair B ; Villas-Bôas, Silas ; Brix, Susanne ; Sicheritz-Pontén, Thomas ; Buschard, Karsten ; Linneberg, Allan ; Rumessen, Jüri J. ; Ekstrøm, Claus T. ; Ritz, Christian ; Kristiansen, Karsten ; Nielsen, H. Bjørn ; Vestergaard, Henrik ; Færgeman, Nils J. ; Raes, Jeroen ; Frøkiær, Hanne ; Hansen, Torben ; Gupta, Ramneek ; Licht, Tine Rask ; Pedersen, Oluf
in: Nature Communications, vol: 9, issue: 1

Type: Journal article (Peer reviewed)

Status: Published     |    År: 2018     |    DOI: https://doi.org/10.1038/s41467-018-07019-x

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Benchmarking the HLA typing performance of Polysolver and Optitype in 50 Danish parental trios

Matey-Hernandez, María Luisa ; Maretty, Lasse ; Jensen, Jacob Malte ; Petersen, Bent ; Andreas Sibbesen, Jonas ; Liu, Siyang ; Villesen, Palle ; Skov, Laurits ; Belling, Kirstine ; Theil Have, Christian ; Gonzalez-Izarzugaza, Jose Maria ; Grosjean, Marie ; Bork-Jensen, Jette ; Grove, Jakob ; Als, Thomas D. ; Huang, Shujia ; Chang, Yuqi ; Xu, Ruiqi ; Ye, Weijian ; Rao, Junhua ; Guo, Xiaosen ; Sun, Jihua ; Cao, Hongzhi ; Ye, Chen ; Beusekom, Johan v. ; Espeseth, Thomas ; Flindt, Esben N. ; Friborg, Rune M. ; Halager, Anders Egerup ; Le Hellard, Stephanie ; Hultman, Christina M. ; Lescai, Francesco ; Li, Shengting ; Lund, Ole ; Løngren, Peter ; Mailund, Thomas ; Mors, Ole ; Pedersen, Christian N. S. ; Sicheritz-Pontén, Thomas ; Sullivan, Patrick F. ; Ali , Syed ; Westergaard, David ; Yadav, Rachita ; Li, Ning ; Xu, Xun ; Hansen, Torben ; Krogh, Anders ; Bolund, Lars ; Sørensen, Thorkild I. A. ; Pedersen, Oluf ; Gupta, Ramneek ; Besenbacher, Søren ; Børglum, Anders D. ; Wang, Jun ; Eiberg, Hans ; Kristiansen, Karsten ; Brunak, Søren ; Schierup, Mikkel Heide ; Izarzugaza, Jose M. G.
in: B M C Bioinformatics, vol: 19

Type: Journal article (Peer reviewed)

Status: Published     |    År: 2018     |    DOI: https://doi.org/10.1186/s12859-018-2239-6

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Comparative genomics sheds light on niche differentiation and the evolutionary history of comammox Nitrospira

Palomo, Alejandro ; Pedersen, Anders Gorm ; Fowler, Jane ; Dechesne, Arnaud ; Sicheritz-Pontén, Thomas ; Smets, Barth F.
in: I S M E Journal, vol: 12, issue: 7, pages: 1779-1793

Type: Journal article (Peer reviewed)

Status: Published     |    År: 2018     |    DOI: https://doi.org/10.1038/s41396-018-0083-3

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Erratum to: Comparative performance of the BGISEQ-500 vs Illumina HiSeq2500 sequencing platforms for palaeogenomic sequencing

Mak, Sarah Siu Tze ; Gopalakrishnan, Shyam ; Carøe, Christian ; Geng, Chunyu ; Liu, Shanlin ; Sinding, Mikkel-Holger S. ; Kuderna, Lukas F. K. ; Zhang, Wenwei ; Fu, Shujin ; Vieira, Filipe G. ; Germonpré, Mietje ; Bocherens, Hervé ; Fedorov, Sergey ; Petersen, Bent ; Sicheritz-Pontén, Thomas ; Marques-Bonet, Tomas ; Zhang, Guojie ; Jiang, Hui ; Gilbert, M. Thomas P.
in: GigaScience, vol: 7, issue: 12

Type: Comment/debate

Status: Published     |    År: 2018     |    DOI: https://doi.org/10.1093/gigascience/giy151

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Hologenomic adaptations underlying the evolution of sanguivory in the common vampire bat

Zepeda Mendoza, M. Lisandra ; Xiong, Zijun ; Escalera-Zamudio, Marina ; Runge, Anne Kathrine ; Thézé, Julien ; Streicker, Daniel ; Frank, Hannah K. ; Loza-Rubio, Elizabeth ; Liu, Shengmao ; Ryder, Oliver A. ; Samaniego Castruita, Jose Alfredo ; Katzourakis, Aris ; Pacheco, George ; Taboada, Blanca ; Löber, Ulrike ; Pybus, Oliver G. ; Li, Yang ; Rojas-Anaya, Edith ; Bohmann, Kristine ; Carmona Baez, Aldo ; Arias, Carlos F. ; Liu, Shiping ; Greenwood, Alex D. ; Bertelsen, Mads F. ; White, Nicole E. ; Bunce, Michael ; Zhang, Guojie ; Sicheritz-Pontén, Thomas ; Gilbert, M. P.Thomas
in: Nature Ecology & Evolution, vol: 2, pages: 659-668

Type: Journal article (Peer reviewed)

Status: Published     |    År: 2018     |    DOI: https://doi.org/10.1038/s41559-018-0476-8

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Influence of Oenococcus oeni and Brettanomyces bruxellensis on Wine Microbial Taxonomic and Functional Potential Profiles

Zepeda-Mendoza, Marie Lisandra ; Edwards, Nathalia Kruse ; Madsen, Mikkel Gulmann ; Abel-Kistrup, Martin ; Puetz, Lara ; Sicheritz-Pontén, Thomas ; Swiegers, Jan H.
in: American Journal of Enology and Viticulture, vol: 69, issue: 4, pages: 321-333

Type: Journal article (Peer reviewed)

Status: Published     |    År: 2018     |    DOI: https://doi.org/10.5344/ajev.2018.17092

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Interspecific Gene Flow Shaped the Evolution of the Genus Canis

Gopalakrishnan, Shyam ; Sinding, Mikkel Holger S. ; Ramos-Madrigal, Jazmín ; Niemann, Jonas ; Samaniego Castruita, Jose A. ; Vieira, Filipe G. ; Carøe, Christian ; Montero, Marc de Manuel ; Kuderna, Lukas ; Serres, Aitor ; González-Basallote, Víctor Manuel ; Liu, Yan Hu ; Wang, Guo Dong ; Marques-Bonet, Tomas ; Mirarab, Siavash ; Fernandes, Carlos ; Gaubert, Philippe ; Koepfli, Klaus Peter ; Budd, Jane ; Rueness, Eli Knispel ; Heide-Jørgensen, Mads Peter ; Petersen, Bent ; Sicheritz-Ponten, Thomas ; Bachmann, Lutz ; Wiig, Øystein ; Hansen, Anders J. ; Gilbert, M. Thomas P.
in: Current Biology, vol: 28, issue: 21, pages: 3441-3449

Type: Journal article (Peer reviewed)

Status: Published     |    År: 2018     |    DOI: https://doi.org/10.1016/j.cub.2018.08.041


https://www.bioinformatics.dtu.dk/danish/service/telefonbog/person?id=26485&tab=2&qt=dtupublicationquery
16 SEPTEMBER 2019