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Items: 35


PAIPline: pathogen identification in metagenomic and clinical next generation sequencing samples.

Andrusch A, Dabrowski PW, Klenner J, Tausch SH, Kohl C, Osman AA, Renard BY, Nitsche A.

Bioinformatics. 2018 Sep 1;34(17):i715-i721. doi: 10.1093/bioinformatics/bty595.


PriLive: privacy-preserving real-time filtering for next-generation sequencing.

Loka TP, Tausch SH, Dabrowski PW, Radonic A, Nitsche A, Renard BY.

Bioinformatics. 2018 Jul 15;34(14):2376-2383. doi: 10.1093/bioinformatics/bty128.


seq-seq-pan: building a computational pan-genome data structure on whole genome alignment.

Jandrasits C, Dabrowski PW, Fuchs S, Renard BY.

BMC Genomics. 2018 Jan 15;19(1):47. doi: 10.1186/s12864-017-4401-3.


Seasonal recurrence of cowpox virus outbreaks in captive cheetahs (Acinonyx jubatus).

Stagegaard J, Kurth A, Stern D, Dabrowski PW, Pocknell A, Nitsche A, Schrick L.

PLoS One. 2017 Nov 9;12(11):e0187089. doi: 10.1371/journal.pone.0187089. eCollection 2017.


An Early American Smallpox Vaccine Based on Horsepox.

Schrick L, Tausch SH, Dabrowski PW, Damaso CR, Esparza J, Nitsche A.

N Engl J Med. 2017 Oct 12;377(15):1491-1492. doi: 10.1056/NEJMc1707600. No abstract available.


Berlin Squirrelpox Virus, a New Poxvirus in Red Squirrels, Berlin, Germany.

Wibbelt G, Tausch SH, Dabrowski PW, Kershaw O, Nitsche A, Schrick L.

Emerg Infect Dis. 2017 Oct;23(10):1726-1729. doi: 10.3201/eid2310.171008.


A novel Coltivirus-related virus isolated from free-tailed bats from Côte d'Ivoire is able to infect human cells in vitro.

Weiss S, Dabrowski PW, Kurth A, Leendertz SAJ, Leendertz FH.

Virol J. 2017 Sep 18;14(1):181. doi: 10.1186/s12985-017-0843-0.


Comparing Viral Metagenomic Extraction Methods.

Klenner J, Kohl C, Dabrowski PW, Nitsche A.

Curr Issues Mol Biol. 2017;24:59-70. doi: 10.21775/cimb.024.059. Epub 2017 Jul 6.


HiLive: real-time mapping of illumina reads while sequencing.

Lindner MS, Strauch B, Schulze JM, Tausch SH, Dabrowski PW, Nitsche A, Renard BY.

Bioinformatics. 2017 Mar 15;33(6):917-319. doi: 10.1093/bioinformatics/btw659.


Infection of human airway epithelial cells by different subtypes of Dobrava-Belgrade virus reveals gene expression patterns corresponding to their virulence potential.

Witkowski PT, Bourquain D, Bankov K, Auste B, Dabrowski PW, Nitsche A, Krüger DH, Schaade L.

Virology. 2016 Jun;493:189-201. doi: 10.1016/j.virol.2016.03.018. Epub 2016 Apr 6.


Rapid characterisation of Klebsiella oxytoca isolates from contaminated liquid hand soap using mass spectrometry, FTIR and Raman spectroscopy.

Dieckmann R, Hammerl JA, Hahmann H, Wicke A, Kleta S, Dabrowski PW, Nitsche A, Stämmler M, Al Dahouk S, Lasch P.

Faraday Discuss. 2016 Jun 23;187:353-75. doi: 10.1039/c5fd00165j.


Comparison of 454 Ultra-Deep Sequencing and Allele-Specific Real-Time PCR with Regard to the Detection of Emerging Drug-Resistant Minor HIV-1 Variants after Antiretroviral Prophylaxis for Vertical Transmission.

Hauser A, Kuecherer C, Kunz A, Dabrowski PW, Radonić A, Nitsche A, Theuring S, Bannert N, Sewangi J, Mbezi P, Dugange F, Harms G, Meixenberger K.

PLoS One. 2015 Oct 15;10(10):e0140809. doi: 10.1371/journal.pone.0140809. eCollection 2015.


First Draft Genome Sequence of Balamuthia mandrillaris, the Causative Agent of Amoebic Encephalitis.

Detering H, Aebischer T, Dabrowski PW, Radonić A, Nitsche A, Renard BY, Kiderlen AF.

Genome Announc. 2015 Sep 24;3(5). pii: e01013-15. doi: 10.1128/genomeA.01013-15.


RAMBO-K: Rapid and Sensitive Removal of Background Sequences from Next Generation Sequencing Data.

Tausch SH, Renard BY, Nitsche A, Dabrowski PW.

PLoS One. 2015 Sep 17;10(9):e0137896. doi: 10.1371/journal.pone.0137896. eCollection 2015.


Genomic Analysis, Phenotype, and Virulence of the Historical Brazilian Smallpox Vaccine Strain IOC: Implications for the Origins and Evolutionary Relationships of Vaccinia Virus.

Medaglia ML, Moussatché N, Nitsche A, Dabrowski PW, Li Y, Damon IK, Lucas CG, Arruda LB, Damaso CR.

J Virol. 2015 Dec;89(23):11909-25. doi: 10.1128/JVI.01833-15. Epub 2015 Sep 16.


Identification and characterization of episomal forms of integrative genomic islands in the genus Francisella.

Rydzewski K, Tlapák H, Niehaus IP, Dabrowski PW, Grunow R, Heuner K.

Int J Med Microbiol. 2015 Dec;305(8):874-80. doi: 10.1016/j.ijmm.2015.08.037. Epub 2015 Sep 8.


SuRankCo: supervised ranking of contigs in de novo assemblies.

Kuhring M, Dabrowski PW, Piro VC, Nitsche A, Renard BY.

BMC Bioinformatics. 2015 Jul 30;16:240. doi: 10.1186/s12859-015-0644-7.


Draft Genome Sequences of Klebsiella oxytoca Isolates Originating from a Highly Contaminated Liquid Hand Soap Product.

Hammerl JA, Lasch P, Nitsche A, Dabrowski PW, Hahmann H, Wicke A, Kleta S, Al Dahouk S, Dieckmann R.

Genome Announc. 2015 Jul 23;3(4). pii: e00820-15. doi: 10.1128/genomeA.00820-15.


Multiplex Pyrosequencing®: Simultaneous Genotyping Based on SNPs from Distant Genomic Regions.

Dabrowski PW, Bourquain K, Nitsche A.

Methods Mol Biol. 2015;1315:337-47. doi: 10.1007/978-1-4939-2715-9_23.


What caused the outbreak of ESBL-producing Klebsiella pneumoniae in a neonatal intensive care unit, Germany 2009 to 2012? Reconstructing transmission with epidemiological analysis and whole-genome sequencing.

Haller S, Eller C, Hermes J, Kaase M, Steglich M, Radonić A, Dabrowski PW, Nitsche A, Pfeifer Y, Werner G, Wunderle W, Velasco E, Abu Sin M, Eckmanns T, Nübel U.

BMJ Open. 2015 May 11;5(5):e007397. doi: 10.1136/bmjopen-2014-007397.


Comprehensive molecular, genomic and phenotypic analysis of a major clone of Enterococcus faecalis MLST ST40.

Zischka M, Künne CT, Blom J, Wobser D, Sakιnç T, Schmidt-Hohagen K, Dabrowski PW, Nitsche A, Hübner J, Hain T, Chakraborty T, Linke B, Goesmann A, Voget S, Daniel R, Schomburg D, Hauck R, Hafez HM, Tielen P, Jahn D, Solheim M, Sadowy E, Larsen J, Jensen LB, Ruiz-Garbajosa P, Quiñones Pérez D, Mikalsen T, Bender J, Steglich M, Nübel U, Witte W, Werner G.

BMC Genomics. 2015 Mar 12;16:175. doi: 10.1186/s12864-015-1367-x.


Comparative genomic analysis of two novel sporadic Shiga toxin-producing Escherichia coli O104:H4 strains isolated 2011 in Germany.

Tietze E, Dabrowski PW, Prager R, Radonic A, Fruth A, Auraß P, Nitsche A, Mielke M, Flieger A.

PLoS One. 2015 Apr 2;10(4):e0122074. doi: 10.1371/journal.pone.0122074. eCollection 2015.


Isolation and functional characterization of the novel Clostridium botulinum neurotoxin A8 subtype.

Kull S, Schulz KM, Weisemann J, Kirchner S, Schreiber T, Bollenbach A, Dabrowski PW, Nitsche A, Kalb SR, Dorner MB, Barr JR, Rummel A, Dorner BG.

PLoS One. 2015 Feb 6;10(2):e0116381. doi: 10.1371/journal.pone.0116381. eCollection 2015.


Investigating the zoonotic origin of the West African Ebola epidemic.

Marí Saéz A, Weiss S, Nowak K, Lapeyre V, Zimmermann F, Düx A, Kühl HS, Kaba M, Regnaut S, Merkel K, Sachse A, Thiesen U, Villányi L, Boesch C, Dabrowski PW, Radonić A, Nitsche A, Leendertz SA, Petterson S, Becker S, Krähling V, Couacy-Hymann E, Akoua-Koffi C, Weber N, Schaade L, Fahr J, Borchert M, Gogarten JF, Calvignac-Spencer S, Leendertz FH.

EMBO Mol Med. 2015 Jan;7(1):17-23. doi: 10.15252/emmm.201404792.


Protocol for metagenomic virus detection in clinical specimens.

Kohl C, Brinkmann A, Dabrowski PW, Radonić A, Nitsche A, Kurth A.

Emerg Infect Dis. 2015 Jan;21(1):48-57. doi: 10.3201/eid2101.140766.


Pipasic: similarity and expression correction for strain-level identification and quantification in metaproteomics.

Penzlin A, Lindner MS, Doellinger J, Dabrowski PW, Nitsche A, Renard BY.

Bioinformatics. 2014 Jun 15;30(12):i149-56. doi: 10.1093/bioinformatics/btu267.


Fatal monkeypox in wild-living sooty mangabey, Côte d'Ivoire, 2012.

Radonić A, Metzger S, Dabrowski PW, Couacy-Hymann E, Schuenadel L, Kurth A, Mätz-Rensing K, Boesch C, Leendertz FH, Nitsche A.

Emerg Infect Dis. 2014 Jun;20(6):1009-11. doi: 10.3201/eid2006.13-1329.


Genome-wide comparison of cowpox viruses reveals a new clade related to Variola virus.

Dabrowski PW, Radonić A, Kurth A, Nitsche A.

PLoS One. 2013 Dec 3;8(12):e79953. doi: 10.1371/journal.pone.0079953. eCollection 2013.


Novel Mycobacterium tuberculosis complex isolate from a wild chimpanzee.

Coscolla M, Lewin A, Metzger S, Maetz-Rennsing K, Calvignac-Spencer S, Nitsche A, Dabrowski PW, Radonic A, Niemann S, Parkhill J, Couacy-Hymann E, Feldman J, Comas I, Boesch C, Gagneux S, Leendertz FH.

Emerg Infect Dis. 2013 Jun;19(6):969-76. doi: 10.3201/eid1906.121012.


MultiPSQ: a software solution for the analysis of diagnostic n-plexed pyrosequencing reactions.

Dabrowski PW, Schröder K, Nitsche A.

PLoS One. 2013;8(3):e60055. doi: 10.1371/journal.pone.0060055. Epub 2013 Mar 26.


Complete genome sequence of the porcine isolate Enterococcus faecalis D32.

Zischka M, Kuenne C, Blom J, Dabrowski PW, Linke B, Hain T, Nitsche A, Goesmann A, Larsen J, Jensen LB, Witte W, Werner G.

J Bacteriol. 2012 Oct;194(19):5490-1. doi: 10.1128/JB.01298-12.


mPSQed: a software for the design of multiplex pyrosequencing assays.

Dabrowski PW, Nitsche A.

PLoS One. 2012;7(6):e38140. doi: 10.1371/journal.pone.0038140. Epub 2012 Jun 4.


Genome analysis of bat adenovirus 2: indications of interspecies transmission.

Kohl C, Vidovszky MZ, Mühldorfer K, Dabrowski PW, Radonić A, Nitsche A, Wibbelt G, Kurth A, Harrach B.

J Virol. 2012 Feb;86(3):1888-92. doi: 10.1128/JVI.05974-11. Epub 2011 Nov 30.


Rapid detection of anti-Vaccinia virus neutralizing antibodies.

Kramski M, Drozd A, Lichtfuss GF, Dabrowski PW, Ellerbrok H.

Virol J. 2011 Mar 25;8:139. doi: 10.1186/1743-422X-8-139.

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