Martin Christen Frølund Thomsen

Martin Christen Frølund Thomsen

Postdoc

DTU BIOINFORMATICS
Department of Bio and Health Informatics

Genomic Epidemiology
DTU Bioinformatics Employees

Technical University of Denmark

Kemitorvet

Building 208, room 003

2800 Kgs. Lyngby

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2017
 

WGS-based surveillance of third-generation cephalosporin-resistant Escherichia coli from bloodstream infections in Denmark

Roer, Louise ; Hansen, Frank ; Thomsen, Martin Christen Frølund ; Knudsen, Jenny Dahl ; Hansen, Dennis Schrøder ; Wang, Mikala ; Samulioniené, Jurgita ; Justesen, Ulrik Stenz ; Røder, Bent L ; Schumacher, Helga ; Østergaard, Claus ; Andersen, Leif Percival ; Dzajic, Esad ; Søndergaard, Turid Snekloth ; Stegger, Marc ; Hammerum, Anette Marie ; Hasman, Henrik
in journal: Journal of Antimicrobial Chemotherapy (ISSN: 0305-7453) (DOI: http://dx.doi.org/10.1093/jac/dkx092), vol: 72, pages: 1922-1929, 2017

Type: Journal article (Peer reviewed)

Status: Published     |    Year: 2017     |    DOI: http://dx.doi.org/10.1093/jac/dkx092

  PDF

MGmapper: Reference based mapping and taxonomy annotation of metagenomics sequence reads

Petersen, Thomas Nordahl ; Lukjancenko, Oksana ; Thomsen, Martin Christen Frølund ; Sperotto, Maria Maddalena ; Lund, Ole ; Aarestrup, Frank Møller ; Sicheritz-Pontén, Thomas
in journal: P L o S One (ISSN: 1932-6203) (DOI: http://dx.doi.org/10.1371/journal.pone.0176469), vol: 12, issue: 5, 2017

Type: Journal article (Peer reviewed)

Status: Published     |    Year: 2017     |    DOI: http://dx.doi.org/10.1371/journal.pone.0176469

 

Development of a web tool for Escherichia coli subtyping based on fimH alleles

Roer, Louise ; Tchesnokova, Veronika ; Allesøe, Rosa Lundbye ; Muradova, Mariya ; Chattopadhyay, Sujay ; Ahrenfeldt, Johanne ; Thomsen, Martin Christen Frølund ; Lund, Ole ; Hansen, Frank ; Hammerum, Anette Marie ; Sokurenko, Evgeni ; Hasman, Henrik
in journal: Journal of Clinical Microbiology (ISSN: 0095-1137) (DOI: http://dx.doi.org/10.1128/JCM.00737-17), vol: 55, issue: 8, pages: 2538-2543, 2017

Type: Journal article (Peer reviewed)

Status: Published     |    Year: 2017     |    DOI: http://dx.doi.org/10.1128/JCM.00737-17

 

The CGE Tool Box

Larsen, Mette Voldby ; Joensen, Katrine Grimstrup ; Zankari, Ea ; Ahrenfeldt, Johanne ; Lukjancenko, Oksana ; Kaas, Rolf Sommer ; Roer, Louise ; Leekitcharoenphon, Pimlapas ; Saputra, Dhany ; Cosentino, S. ; Thomsen, Martin Christen Frølund ; Bellod Cisneros, Jose Luis ; Jurtz, Vanessa Isabell ; Rasmussen, Simon ; Petersen, Thomas Nordahl ; Hasman, Henrik ; Sicheritz-Pontén, Thomas ; Aarestrup, Frank Møller ; Lund, Ole
part of: Applied Genomics of Foodborne Pathogens, pages: 65-90, 2017, Springer, Switzerland

Type: Book chapter (Peer reviewed)

Status: Published     |    Year: 2017     |    DOI: http://dx.doi.org/10.1007/978-3-319-43751-4_5

  PDF

RUCS: Rapid identification of PCR primers for unique core sequences

Thomsen, Martin Christen Frølund ; Hasman, Henrik ; Westh, Henrik ; Kaya, Hülya ; Lund, Ole
in journal: Bioinformatics (ISSN: 1367-4803) (DOI: http://dx.doi.org/10.1093/bioinformatics/btx526), 2017

Type: Journal article (Peer reviewed)

Status: Accepted/In press     |    Year: 2017     |    DOI: http://dx.doi.org/10.1093/bioinformatics/btx526

2016
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A Bacterial Analysis Platform: An Integrated System for Analysing Bacterial Whole Genome Sequencing Data for Clinical Diagnostics and Surveillance

Thomsen, Martin Christen Frølund ; Ahrenfeldt, Johanne ; Bellod Cisneros, Jose Luis ; Jurtz, Vanessa Isabell ; Larsen, Mette Voldby ; Hasman, Henrik ; Aarestrup, Frank Møller ; Lund, Ole
in journal: P L o S One (ISSN: 1932-6203) (DOI: http://dx.doi.org/10.1371/journal.pone.0157718), vol: 11, issue: 6, 2016

Type: Journal article (Peer reviewed)

Status: Published     |    Year: 2016     |    DOI: http://dx.doi.org/10.1371/journal.pone.0157718

2015
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Genomic Epidemiology

Lund, Ole ; Thomsen, Martin Christen Frølund ; Bellod Cisneros, Jose Luis ; Ahrenfeldt, Johanne ; Tetzschner, Anna Maria Malberg ; Leekitcharoenphon, Pimlapas ; Kaas, Rolf Sommer ; Lukjancenko, Oksana ; Aarestrup, Frank Møller
part of: Book of Abstracts. DTU's Sustain Conference 2015, 2015, Technical University of Denmark (DTU), Lyngby
Presented at:
DTU Sustain Conference 2015, 2015, Lyngby

Type: Conference abstract in proceedings (Peer reviewed)

Status: Published     |    Year: 2015

2013
 

MHCcluster, a method for functional clustering of MHC molecules

Thomsen, Martin Christen Frølund ; Lundegaard, Claus ; Buus, Søren ; Lund, Ole ; Nielsen, Morten
in journal: Immunogenetics (ISSN: 0093-7711) (DOI: http://dx.doi.org/10.1007/s00251-013-0714-9), vol: 65, issue: 9, pages: 655-665, 2013

Type: Journal article (Peer reviewed)

Status: Published     |    Year: 2013     |    DOI: http://dx.doi.org/10.1007/s00251-013-0714-9

2012
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Seq2Logo: a method for construction and visualization of amino acid binding motifs and sequence profiles including sequence weighting, pseudo counts and two-sided representation of amino acid enrichment and depletion

Thomsen, Martin Christen Frølund ; Nielsen, Morten
in journal: Nucleic Acids Research (ISSN: 0305-1048) (DOI: http://dx.doi.org/10.1093/nar/gks469), vol: 40, issue: W1, pages: W281-W287, 2012

Type: Journal article (Peer reviewed)

Status: Published     |    Year: 2012     |    DOI: http://dx.doi.org/10.1093/nar/gks469

  PDF

snpTree - a web-server to identify and construct SNP trees from whole genome sequence data.

Leekitcharoenphon, Pimlapas ; Kaas, Rolf Sommer ; Thomsen, Martin Christen Frølund ; Rundsten, Carsten Friis ; Rasmussen, Simon ; Aarestrup, Frank Møller
in journal: B M C Genomics (ISSN: 1471-2164) (DOI: http://dx.doi.org/10.1186/1471-2164-13-S7-S6), vol: 13, issue: Suppl 7, pages: S6, 2012

Type: Journal article (Peer reviewed)

Status: Published     |    Year: 2012     |    DOI: http://dx.doi.org/10.1186/1471-2164-13-S7-S6


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