Thomas Nordahl Petersen

Associate Professor

  • Kemitorvet, 204, 105

    2800 Kgs. Lyngby

    Denmark

20062020

Research output per year

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Research Output

2020

The gut microbiome but not the resistome is associated with urogenital schistosomiasis in preschool-aged children

Osakunor, D. N. M., Munk, P., Mduluza, T., Petersen, T. N., Brinch, C., Ivens, A., Chimponda, T., Amanfo, S. A., Murray, J., Woolhouse, M. E. J., Aarestrup, F. M. & Mutapi, F., 2020, In : Communications Biology. 3, 1, 11 p., 155.

Research output: Contribution to journalJournal articleResearchpeer-review

Open Access
File
30 Downloads (Pure)
2019

Global monitoring of antimicrobial resistance based on metagenomics analyses of urban sewage

Hendriksen, R. S., Munk, P., Njage, P. M. K., van Bunnik, B., McNally, L., Lukjancenko, O., Röder, T., Nieuwenhuijse, D., Karlsmose Pedersen, S., Kjeldgaard, J. S., Kaas, R. S., Clausen, P. T. L. C., Vogt, J. K., Leekitcharoenphon, P., van de Schans, M. G. M., Zuidema, T., de Roda Husman, A. M., Rasmussen, S., Petersen, B., Global, S. S. P. C. & 14 others, Amid, C., Cochrane, G., Sicheritz-Pontén, T., Schmitt, H., Alvarez, J. R. M., Aidara-Kane, A., Pamp, S. J., Lund, O., Hald, T., Woolhouse, M., Koopmans, M. P., Vigre, H., Petersen, T. N. & Aarestrup, F. M., 2019, In : Nature Communications. 10, 12 p., 1124.

Research output: Contribution to journalJournal articleResearchpeer-review

Open Access
File
381 Downloads (Pure)

Proficiency testing of virus diagnostics based on bioinformatics analysis of simulated in silico high-throughput sequencing datasets

Brinkmann, A., Andrusch, A., Belka, A., Wylezich, C., Höper, D., Pohlmann, A., Petersen, T. N., Lucas, P., Blanchard, Y., Papa, A., Melidou, A., Oude Munnink, B. B., Matthijnssens, J., Deboutte, W., Ellis, R. J., Hansmann, F., Baumgärtner, W., van der Vries, E., Osterhaus, A., Camma, C. & 16 others, Mangone, I., Lorusso, A., Maracci, M., Nunes, A., Pinto, M., Borges, V., Kroneman, A., Schmitz, D., Corman, V. M., Drosten, C., Jones, T. C., Hendriksen, R. S., Aarestrup, F. M., Koopmans, M., Beer, M. & Nitsche, A., 2019, In : Journal of Clinical Microbiology. 57, 8, 12 p., e00466-19.

Research output: Contribution to journalJournal articleResearchpeer-review

Open Access
File
186 Downloads (Pure)

SignalP 5.0 improves signal peptide predictions using deep neural networks

Almagro Armenteros, J. J., Tsirigos, K. D., Sønderby, C. K., Petersen, T. N., Winther, O., Brunak, S., von Heijne, G. & Nielsen, H., 2019, In : Nature Biotechnology. 37, p. 420-423

Research output: Contribution to journalJournal articleResearchpeer-review

Open Access
File
666 Downloads (Pure)
2018

Abundance and diversity of the faecal resistome in slaughter pigs and broilers in nine European countries

Munk, P., Knudsen, B. E., Lukjacenko, O., Duarte, A. S. R., Van Gompel, L., Luiken, R. E. C., Smit, L. A. M., Schmitt, H., Garcia, A. D., Hansen, R. B., Petersen, T. N., Bossers, A., Ruppé, E., Graveland, H., van Essen, A., Gonzalez-Zorn, B., Moyano, G., Sanders, P., Chauvin, C., David, J. & 21 others, Battisti, A., Caprioli, A., Dewulf, J., Blaha, T., Wadepohl, K., Brandt, M., Wasyl, D., Skarzyńska, M., Zajac, M., Daskalov, H., Saatkamp, H. W., Stärk, K. D. C., Lund, O., Hald, T., Pamp, S. J., Vigre, H., Heederik, D., Wagenaar, J. A., Mevius, D., Møller Aarestrup, F. & EFFORT Group, 1 Aug 2018, In : Nature Microbiology. 3, 8, p. 898-908

Research output: Contribution to journalJournal articleResearchpeer-review

Open Access
File
479 Downloads (Pure)
2017

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

Petersen, T. N., Lukjancenko, O., Thomsen, M. C. F., Sperotto, M. M., Lund, O., Aarestrup, F. M. & Sicheritz-Pontén, T., 2017, In : P L o S One. 12, 5, 13 p., e0176469.

Research output: Contribution to journalJournal articleResearchpeer-review

Open Access
File
435 Downloads (Pure)

Norgal: Extraction and de novo assembly of mitochondrial DNA from whole-genome sequencing data

Al-Nakeeb, K. A. A., Petersen, T. N. & Sicheritz-Pontén, T., 2017, In : B M C Bioinformatics. 18, 1, 7 p., 510.

Research output: Contribution to journalJournal articleResearchpeer-review

Open Access
File
343 Downloads (Pure)

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., 2017, In : Proteins: Structure, Function, and Bioinformatics. 85, 11, p. 2036-2044

Research output: Contribution to journalJournal articleResearchpeer-review

Open Access
File
214 Downloads (Pure)

The CGE Tool Box

Larsen, M. V., Joensen, K. G., Zankari, E., Ahrenfeldt, J., Lukjancenko, O., Kaas, R. S., Roer, L., Leekitcharoenphon, P., Saputra, D., Cosentino, S., Thomsen, M. C. F., Bellod Cisneros, J. L., Jurtz, V. I., Rasmussen, S., Petersen, T. N., Hasman, H., Sicheritz-Pontén, T., Aarestrup, F. M. & Lund, O., 2017, Applied Genomics of Foodborne Pathogens. Switzerland: Springer, p. 65-90

Research output: Chapter in Book/Report/Conference proceedingBook chapterResearchpeer-review

2015

Meta-genomic analysis of toilet waste from long distance flights; a step towards global surveillance of infectious diseases and antimicrobial resistance

Petersen, T. N., Rasmussen, S., Hasman, H., Carøe, C., Bælum, J., Schultz, A. C., Bergmark, L., Svendsen, C. A., Lund, O., Sicheritz-Pontén, T. & Aarestrup, F. M., 2015, In : Scientific Reports. 5, 9 p., 11444.

Research output: Contribution to journalJournal articleResearchpeer-review

Open Access
File
446 Downloads (Pure)
2014

Cofactory: Sequence-based prediction of cofactor specificity of Rossmann folds

Geertz-Hansen, H. M., Blom, N., Feist, A., Brunak, S. & Petersen, T. N., 2014, In : Proteins: Structure, Function, and Bioinformatics. 82, 9, p. 1819-1828

Research output: Contribution to journalJournal articleResearchpeer-review

Compass: A hybrid method for clinical and biobank data mining

Krysiak-Baltyn, K., Petersen, T. N., Audouze, K. M. L., Jørgensen, N., Ängquist, L. & Brunak, S., 2014, In : Journal of Biomedical Informatics. 47, p. 160-170

Research output: Contribution to journalJournal articleResearchpeer-review

2013

Prediction of Disease Causing Non-Synonymous SNPs by the Artificial Neural Network Predictor NetDiseaseSNP.

Johansen, M. B., Gonzalez-Izarzugaza, J. M., Brunak, S., Petersen, T. N. & Gupta, R., 2013, In : PloS one.. 8, 7, e68370.

Research output: Contribution to journalJournal articleResearchpeer-review

Open Access
File
353 Downloads (Pure)
2011

A Systematic Study of Site-specific GalNAc-type O-Glycosylation Modulating Proprotein Convertase Processing

Schjoldager, K. T-B. G., Vester-Christensen, M. B., Goth, C. K., Petersen, T. N., Brunak, S., Bennett, E. P., Levery, S. B. & Clausen, H., 2011, In : Journal of Biological Chemistry. 286, 46, p. 40122-40132

Research output: Contribution to journalJournal articleResearchpeer-review

SignalP 4.0: discriminating signal peptides from transmembrane regions

Petersen, T. N., Brunak, S., von Heijne, G. & Nielsen, H., 2011, In : Nature Methods. 8, 10, p. 785-786

Research output: Contribution to journalLetterResearchpeer-review

2010

CPHmodels-3.0--remote homology modeling using structure-guided sequence profiles

Nielsen, M., Lundegaard, C., Lund, O. & Petersen, T. N., 2010, In : Nucleic Acids Research. 38, p. W576-W581

Research output: Contribution to journalJournal articleResearchpeer-review

Open Access
File
300 Downloads (Pure)

NetTurnP – Neural Network Prediction of Beta-turns by Use of Evolutionary Information and Predicted Protein Sequence Features

Petersen, B., Lundegaard, C. & Petersen, T. N., 2010, In : P L o S One. 5, 11

Research output: Contribution to journalJournal articleResearchpeer-review

Open Access
File
392 Downloads (Pure)
2009

A generic method for assignment of reliability scores applied to solvent accessibility predictions

Petersen, B., Petersen, T. N., Andersen, P., Nielsen, M. & Lundegaard, C., 2009, In : BMC Structural Biology. 9, p. 51

Research output: Contribution to journalJournal articleResearchpeer-review

Open Access
File
251 Downloads (Pure)
2007

Midbrain expression of Delta-like 1 homologue is regulated by GDNF and is associated with dopaminergic differentiation

Christophersen, N. S., Gronborg, M., Petersen, T. N., Fjord-Larsen, L., Jorgensen, J. R., Juliusson, B., Blom, N., Rosenblad, C. & Brundin, P., 2007, In : Experimental neurology. 2, p. 791-801

Research output: Contribution to journalJournal articleResearchpeer-review

2006

Identification of novel genes regulated in the developing human ventral mesencephalon

Jørgensen, JR., Juliusson, B., Henriksen, KF., Hansen, C., Knudsen, S., Petersen, T. N., Blom, N., Seiger, A. & Wahlberg, LU., 2006, In : Experimental neurology. 198, 2, p. 427-437

Research output: Contribution to journalJournal articleResearchpeer-review