Clausen PTLC - Search Results

1

CCMetagen: comprehensive and accurate identification of eukaryotes and prokaryotes in metagenomic data.

Marcelino VR, Clausen PTLC, Buchmann JP, Wille M, Iredell JR, Meyer W, Lund O, Sorrell TC, Holmes EC. Marcelino VR, et al. Among authors: clausen ptlc. Genome Biol. 2020 Apr 28;21(1):103. doi: 10.1186/s13059-020-02014-2. Genome Biol. 2020. PMID: 32345331 Free PMC article.

2

Benchmarking of methods for identification of antimicrobial resistance genes in bacterial whole genome data.

Clausen PT, Zankari E, Aarestrup FM, Lund O. Clausen PT, et al. J Antimicrob Chemother. 2016 Sep;71(9):2484-8. doi: 10.1093/jac/dkw184. Epub 2016 Jun 30. J Antimicrob Chemother. 2016. PMID: 27365186

3

Rapid and precise alignment of raw reads against redundant databases with KMA.

Clausen PTLC, Aarestrup FM, Lund O. Clausen PTLC, et al. BMC Bioinformatics. 2018 Aug 29;19(1):307. doi: 10.1186/s12859-018-2336-6. BMC Bioinformatics. 2018. PMID: 30157759 Free PMC article.

4

LRE-Finder, a Web tool for detection of the 23S rRNA mutations and the optrA, cfr, cfr(B) and poxtA genes encoding linezolid resistance in enterococci from whole-genome sequences.

Hasman H, Clausen PTLC, Kaya H, Hansen F, Knudsen JD, Wang M, Holzknecht BJ, Samulioniené J, Røder BL, Frimodt-Møller N, Lund O, Hammerum AM. Hasman H, et al. Among authors: clausen ptlc. J Antimicrob Chemother. 2019 Jun 1;74(6):1473-1476. doi: 10.1093/jac/dkz092. J Antimicrob Chemother. 2019. PMID: 30863844

5

Improved Resistance Prediction in Mycobacterium tuberculosis by Better Handling of Insertions and Deletions, Premature Stop Codons, and Filtering of Non-informative Sites.

Johnsen CH, Clausen PTLC, Aarestrup FM, Lund O. Johnsen CH, et al. Among authors: clausen ptlc. Front Microbiol. 2019 Oct 31;10:2464. doi: 10.3389/fmicb.2019.02464. eCollection 2019. Front Microbiol. 2019. PMID: 31736907 Free PMC article.

6

Prediction of Acquired Antimicrobial Resistance for Multiple Bacterial Species Using Neural Networks.

Aytan-Aktug D, Clausen PTLC, Bortolaia V, Aarestrup FM, Lund O. Aytan-Aktug D, et al. Among authors: clausen ptlc. mSystems. 2020 Jan 21;5(1):e00774-19. doi: 10.1128/mSystems.00774-19. mSystems. 2020. PMID: 31964771 Free PMC article.

7

Metaphylogenetic analysis of global sewage reveals that bacterial strains associated with human disease show less degree of geographic clustering.

Ahrenfeldt J, Waisi M, Loft IC, Clausen PTLC, Allesøe R, Szarvas J, Hendriksen RS, Aarestrup FM, Lund O. Ahrenfeldt J, et al. Among authors: clausen ptlc. Sci Rep. 2020 Feb 20;10(1):3033. doi: 10.1038/s41598-020-59292-w. Sci Rep. 2020. PMID: 32080241 Free PMC article.

8

Automated download and clean-up of family-specific databases for kmer-based virus identification.

Allesøe RL, Lemvigh CK, Phan MVT, Clausen PTLC, Florensa AF, Koopmans MPG, Lund O, Cotten M. Allesøe RL, et al. Among authors: clausen ptlc. Bioinformatics. 2021 May 5;37(5):705-710. doi: 10.1093/bioinformatics/btaa857. Bioinformatics. 2021. PMID: 33031509 Free PMC article.

9

MINTyper: an outbreak-detection method for accurate and rapid SNP typing of clonal clusters with noisy long reads.

Hallgren MB, Overballe-Petersen S, Lund O, Hasman H, Clausen PTLC. Hallgren MB, et al. Among authors: clausen ptlc. Biol Methods Protoc. 2021 Apr 21;6(1):bpab008. doi: 10.1093/biomethods/bpab008. eCollection 2021. Biol Methods Protoc. 2021. PMID: 33981853 Free PMC article.

10

Predicting Antimicrobial Resistance Using Partial Genome Alignments.

Aytan-Aktug D, Nguyen M, Clausen PTLC, Stevens RL, Aarestrup FM, Lund O, Davis JJ. Aytan-Aktug D, et al. Among authors: clausen ptlc. mSystems. 2021 Jun 29;6(3):e0018521. doi: 10.1128/mSystems.00185-21. Epub 2021 Jun 15. mSystems. 2021. PMID: 34128695 Free PMC article.

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