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Items: 1 to 20 of 377

1.

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

Clausen PT, Zankari E, Aarestrup FM, Lund O.

J Antimicrob Chemother. 2016 Jun 30. pii: dkw184. [Epub ahead of print]

PMID:
27365186
2.

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

Thomsen MC, Ahrenfeldt J, Cisneros JL, Jurtz V, Larsen MV, Hasman H, Aarestrup FM, Lund O.

PLoS One. 2016 Jun 21;11(6):e0157718. doi: 10.1371/journal.pone.0157718. eCollection 2016.

3.

Meta-analysis of proportion estimates of Extended-Spectrum-Beta-Lactamase-producing Enterobacteriaceae in East Africa hospitals.

Sonda T, Kumburu H, van Zwetselaar M, Alifrangis M, Lund O, Kibiki G, Aarestrup FM.

Antimicrob Resist Infect Control. 2016 May 14;5:18. doi: 10.1186/s13756-016-0117-4. eCollection 2016. Review.

4.

HostPhinder: A Phage Host Prediction Tool.

Villarroel J, Kleinheinz KA, Jurtz VI, Zschach H, Lund O, Nielsen M, Larsen MV.

Viruses. 2016 May 4;8(5). pii: E116. doi: 10.3390/v8050116.

5.

Synthesis and Biological Evaluations of Cytotoxic and Antiangiogenic Triterpenoids-Jacaranone Conjugates.

Sun H, Yue PY, Wang SR, Huo L, Zhao Y, Xie S, Kringelum JV, Lund O, Taboureau O, Zhou J, Wong RN, Fang WS.

Med Chem. 2016 May 2. [Epub ahead of print]

PMID:
27140183
6.

Application of Whole-Genome Sequencing Data for O-Specific Antigen Analysis and In Silico Serotyping of Pseudomonas aeruginosa Isolates.

Thrane SW, Taylor VL, Lund O, Lam JS, Jelsbak L.

J Clin Microbiol. 2016 Jul;54(7):1782-8. doi: 10.1128/JCM.00349-16. Epub 2016 Apr 20.

PMID:
27098958
7.

Global Genomic Epidemiology of Salmonella enterica Serovar Typhimurium DT104.

Leekitcharoenphon P, Hendriksen RS, Le Hello S, Weill FX, Baggesen DL, Jun SR, Ussery DW, Lund O, Crook DW, Wilson DJ, Aarestrup FM.

Appl Environ Microbiol. 2016 Apr 4;82(8):2516-26. doi: 10.1128/AEM.03821-15. Print 2016 Apr 15.

8.

Identification of Known and Novel Recurrent Viral Sequences in Data from Multiple Patients and Multiple Cancers.

Friis-Nielsen J, Kjartansdóttir KR, Mollerup S, Asplund M, Mourier T, Jensen RH, Hansen TA, Rey-Iglesia A, Richter SR, Nielsen IB, Alquezar-Planas DE, Olsen PV, Vinner L, Fridholm H, Nielsen LP, Willerslev E, Sicheritz-Pontén T, Lund O, Hansen AJ, Izarzugaza JM, Brunak S.

Viruses. 2016 Feb 19;8(2). pii: E53. doi: 10.3390/v8020053.

9.

Benchtop Whole-Genome Sequencing for Identification of Nosocomial Outbreaks in Tanzania.

Sonda T, Kumburu H, Zwetselaar Mv, Ahrenfeldt J, Alifrangis M, Lund O, Kibiki G, Aarestrup FM.

Infect Control Hosp Epidemiol. 2016 May;37(5):622-3. doi: 10.1017/ice.2016.28. Epub 2016 Feb 22. No abstract available.

PMID:
26899363
10.

ChemProt-3.0: a global chemical biology diseases mapping.

Kringelum J, Kjaerulff SK, Brunak S, Lund O, Oprea TI, Taboureau O.

Database (Oxford). 2016 Feb 13;2016. pii: bav123. doi: 10.1093/database/bav123. Print 2016.

11.

Propionibacterium acnes: Disease-Causing Agent or Common Contaminant? Detection in Diverse Patient Samples by Next-Generation Sequencing.

Mollerup S, Friis-Nielsen J, Vinner L, Hansen TA, Richter SR, Fridholm H, Herrera JA, Lund O, Brunak S, Izarzugaza JM, Mourier T, Nielsen LP, Hansen AJ.

J Clin Microbiol. 2016 Apr;54(4):980-7. doi: 10.1128/JCM.02723-15. Epub 2016 Jan 27.

12.

Biochemical and molecular tools reveal two diverse Xanthomonas groups in bananas.

Adriko J, Aritua V, Mortensen CN, Tushemereirwe WK, Mulondo AL, Kubiriba J, Lund OS.

Microbiol Res. 2016 Feb;183:109-16. doi: 10.1016/j.micres.2015.12.002. Epub 2015 Dec 8.

PMID:
26805624
13.

What Can We Learn from a Metagenomic Analysis of a Georgian Bacteriophage Cocktail?

Zschach H, Joensen KG, Lindhard B, Lund O, Goderdzishvili M, Chkonia I, Jgenti G, Kvatadze N, Alavidze Z, Kutter EM, Hasman H, Larsen MV.

Viruses. 2015 Dec 12;7(12):6570-89. doi: 10.3390/v7122958.

14.

Reads2Type: a web application for rapid microbial taxonomy identification.

Saputra D, Rasmussen S, Larsen MV, Haddad N, Sperotto MM, Aarestrup FM, Lund O, Sicheritz-Pontén T.

BMC Bioinformatics. 2015 Nov 25;16:398. doi: 10.1186/s12859-015-0829-0.

15.

Multidimensional Clusters of CD4+ T Cell Dysfunction Are Primarily Associated with the CD4/CD8 Ratio in Chronic HIV Infection.

Frederiksen J, Buggert M, Noyan K, Nowak P, Sönnerborg A, Lund O, Karlsson AC.

PLoS One. 2015 Sep 24;10(9):e0137635. doi: 10.1371/journal.pone.0137635. eCollection 2015.

16.

A revision of the history of the Colletotrichum acutatum species complex in the Nordic countries based on herbarium specimens.

Sundelin T, Strømeng GM, Gjærum HB, Amby DB, Ørstad K, Jensen B, Lund OS, Stensvand A.

FEMS Microbiol Lett. 2015 Aug;362(16). pii: fnv130. doi: 10.1093/femsle/fnv130. Epub 2015 Aug 21.

PMID:
26296707
17.

High-throughput sequencing enhanced phage display enables the identification of patient-specific epitope motifs in serum.

Christiansen A, Kringelum JV, Hansen CS, Bøgh KL, Sullivan E, Patel J, Rigby NM, Eiwegger T, Szépfalusi Z, de Masi F, Nielsen M, Lund O, Dufva M.

Sci Rep. 2015 Aug 6;5:12913. doi: 10.1038/srep12913.

18.

Ebolavirus comparative genomics.

Jun SR, Leuze MR, Nookaew I, Uberbacher EC, Land M, Zhang Q, Wanchai V, Chai J, Nielsen M, Trolle T, Lund O, Buzard GS, Pedersen TD, Wassenaar TM, Ussery DW.

FEMS Microbiol Rev. 2015 Sep;39(5):764-78. doi: 10.1093/femsre/fuv031. Epub 2015 Jul 14. Review.

19.

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

Nordahl Petersen T, Rasmussen S, Hasman H, Carøe C, Bælum J, Schultz AC, Bergmark L, Svendsen CA, Lund O, Sicheritz-Pontén T, Aarestrup FM.

Sci Rep. 2015 Jul 10;5:11444. doi: 10.1038/srep11444.

20.

Insights from 20 years of bacterial genome sequencing.

Land M, Hauser L, Jun SR, Nookaew I, Leuze MR, Ahn TH, Karpinets T, Lund O, Kora G, Wassenaar T, Poudel S, Ussery DW.

Funct Integr Genomics. 2015 Mar;15(2):141-61. doi: 10.1007/s10142-015-0433-4. Epub 2015 Feb 27. Review.

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