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Items: 37


Benchmarking of long-read assemblers for prokaryote whole genome sequencing.

Wick RR, Holt KE.

F1000Res. 2019 Dec 23;8:2138. doi: 10.12688/f1000research.21782.1. eCollection 2019.


The inflated mitochondrial genomes of siphonous green algae reflect processes driving expansion of noncoding DNA and proliferation of introns.

Repetti SI, Jackson CJ, Judd LM, Wick RR, Holt KE, Verbruggen H.

PeerJ. 2020 Jan 3;8:e8273. doi: 10.7717/peerj.8273. eCollection 2020.


Complete Genome Sequence of A388, an Antibiotic-Resistant Acinetobacter baumannii Global Clone 1 Isolate from Greece.

Hamidian M, Wick RR, Judd LM, Holt KE, Hall RM.

Microbiol Resour Announc. 2019 Oct 10;8(41). pii: e00971-19. doi: 10.1128/MRA.00971-19.


Insights from the revised complete genome sequences of Acinetobacter baumannii strains AB307-0294 and ACICU belonging to global clones 1 and 2.

Hamidian M, Wick RR, Hartstein RM, Judd LM, Holt KE, Hall RM.

Microb Genom. 2019 Oct;5(10). doi: 10.1099/mgen.0.000298.


Performance of neural network basecalling tools for Oxford Nanopore sequencing.

Wick RR, Judd LM, Holt KE.

Genome Biol. 2019 Jun 24;20(1):129. doi: 10.1186/s13059-019-1727-y.


Distinct evolutionary dynamics of horizontal gene transfer in drug resistant and virulent clones of Klebsiella pneumoniae.

Wyres KL, Wick RR, Judd LM, Froumine R, Tokolyi A, Gorrie CL, Lam MMC, Duchêne S, Jenney A, Holt KE.

PLoS Genet. 2019 Apr 15;15(4):e1008114. doi: 10.1371/journal.pgen.1008114. eCollection 2019 Apr.


Convergence of virulence and MDR in a single plasmid vector in MDR Klebsiella pneumoniae ST15.

Lam MMC, Wyres KL, Wick RR, Judd LM, Fostervold A, Holt KE, Löhr IH.

J Antimicrob Chemother. 2019 May 1;74(5):1218-1222. doi: 10.1093/jac/dkz028.


Small IncQ1 and Col-Like Plasmids Harboring bla KPC-2 and Non-Tn4401 Elements (NTEKPC-IId) in High-Risk Lineages of Klebsiella pneumoniae CG258.

Cerdeira LT, Lam MMC, Wyres KL, Wick RR, Judd LM, Lopes R, Ribas RM, Morais MM, Holt KE, Lincopan N.

Antimicrob Agents Chemother. 2019 Feb 26;63(3). pii: e02140-18. doi: 10.1128/AAC.02140-18. Print 2019 Mar. No abstract available.


Emergence and rapid global dissemination of CTX-M-15-associated Klebsiella pneumoniae strain ST307.

Wyres KL, Hawkey J, Hetland MAK, Fostervold A, Wick RR, Judd LM, Hamidian M, Howden BP, Löhr IH, Holt KE.

J Antimicrob Chemother. 2019 Mar 1;74(3):577-581. doi: 10.1093/jac/dky492.


Deepbinner: Demultiplexing barcoded Oxford Nanopore reads with deep convolutional neural networks.

Wick RR, Judd LM, Holt KE.

PLoS Comput Biol. 2018 Nov 20;14(11):e1006583. doi: 10.1371/journal.pcbi.1006583. eCollection 2018 Nov.


Tracking key virulence loci encoding aerobactin and salmochelin siderophore synthesis in Klebsiella pneumoniae.

Lam MMC, Wyres KL, Judd LM, Wick RR, Jenney A, Brisse S, Holt KE.

Genome Med. 2018 Oct 29;10(1):77. doi: 10.1186/s13073-018-0587-5.


Population genomics of hypervirulent Klebsiella pneumoniae clonal-group 23 reveals early emergence and rapid global dissemination.

Lam MMC, Wyres KL, Duchêne S, Wick RR, Judd LM, Gan YH, Hoh CH, Archuleta S, Molton JS, Kalimuddin S, Koh TH, Passet V, Brisse S, Holt KE.

Nat Commun. 2018 Jul 13;9(1):2703. doi: 10.1038/s41467-018-05114-7.


Genetic diversity, mobilisation and spread of the yersiniabactin-encoding mobile element ICEKp in Klebsiella pneumoniae populations.

Lam MMC, Wick RR, Wyres KL, Gorrie CL, Judd LM, Jenney AWJ, Brisse S, Holt KE.

Microb Genom. 2018 Sep;4(9). doi: 10.1099/mgen.0.000196. Epub 2018 Jul 9.


Morphological, genomic and transcriptomic responses of Klebsiella pneumoniae to the last-line antibiotic colistin.

Cain AK, Boinett CJ, Barquist L, Dordel J, Fookes M, Mayho M, Ellington MJ, Goulding D, Pickard D, Wick RR, Holt KE, Parkhill J, Thomson NR.

Sci Rep. 2018 Jun 29;8(1):9868. doi: 10.1038/s41598-018-28199-y.


Kaptive Web: User-Friendly Capsule and Lipopolysaccharide Serotype Prediction for Klebsiella Genomes.

Wick RR, Heinz E, Holt KE, Wyres KL.

J Clin Microbiol. 2018 May 25;56(6). pii: e00197-18. doi: 10.1128/JCM.00197-18. Print 2018 Jun.


Evolution of carbapenem resistance in Acinetobacter baumannii during a prolonged infection.

Hawkey J, Ascher DB, Judd LM, Wick RR, Kostoulias X, Cleland H, Spelman DW, Padiglione A, Peleg AY, Holt KE.

Microb Genom. 2018 Mar;4(3). doi: 10.1099/mgen.0.000165. Epub 2018 Mar 16.


Antimicrobial-Resistant Klebsiella pneumoniae Carriage and Infection in Specialized Geriatric Care Wards Linked to Acquisition in the Referring Hospital.

Gorrie CL, Mirceta M, Wick RR, Judd LM, Wyres KL, Thomson NR, Strugnell RA, Pratt NF, Garlick JS, Watson KM, Hunter PC, McGloughlin SA, Spelman DW, Jenney AWJ, Holt KE.

Clin Infect Dis. 2018 Jul 2;67(2):161-170. doi: 10.1093/cid/ciy027.


Completing bacterial genome assemblies with multiplex MinION sequencing.

Wick RR, Judd LM, Gorrie CL, Holt KE.

Microb Genom. 2017 Sep 14;3(10):e000132. doi: 10.1099/mgen.0.000132. eCollection 2017 Oct.


Unicycler: Resolving bacterial genome assemblies from short and long sequencing reads.

Wick RR, Judd LM, Gorrie CL, Holt KE.

PLoS Comput Biol. 2017 Jun 8;13(6):e1005595. doi: 10.1371/journal.pcbi.1005595. eCollection 2017 Jun.


Gastrointestinal Carriage Is a Major Reservoir of Klebsiella pneumoniae Infection in Intensive Care Patients.

Gorrie CL, Mirceta M, Wick RR, Edwards DJ, Thomson NR, Strugnell RA, Pratt NF, Garlick JS, Watson KM, Pilcher DV, McGloughlin SA, Spelman DW, Jenney AWJ, Holt KE.

Clin Infect Dis. 2017 Jul 15;65(2):208-215. doi: 10.1093/cid/cix270.


Repeated local emergence of carbapenem-resistant Acinetobacter baumannii in a single hospital ward.

Schultz MB, Pham Thanh D, Tran Do Hoan N, Wick RR, Ingle DJ, Hawkey J, Edwards DJ, Kenyon JJ, Phu Huong Lan N, Campbell JI, Thwaites G, Thi Khanh Nhu N, Hall RM, Fournier-Level A, Baker S, Holt KE.

Microb Genom. 2016 Mar 2;2(3):e000050. doi: 10.1099/mgen.0.000050. eCollection 2016 Mar.


Identification of Klebsiella capsule synthesis loci from whole genome data.

Wyres KL, Wick RR, Gorrie C, Jenney A, Follador R, Thomson NR, Holt KE.

Microb Genom. 2016 Dec 12;2(12):e000102. doi: 10.1099/mgen.0.000102. eCollection 2016 Dec.


Microbial mercury methylation in Antarctic sea ice.

Gionfriddo CM, Tate MT, Wick RR, Schultz MB, Zemla A, Thelen MP, Schofield R, Krabbenhoft DP, Holt KE, Moreau JW.

Nat Microbiol. 2016 Aug 1;1(10):16127. doi: 10.1038/nmicrobiol.2016.127.


Inducible colistin resistance via a disrupted plasmid-borne mcr-1 gene in a 2008 Vietnamese Shigella sonnei isolate.

Pham Thanh D, Thanh Tuyen H, Nguyen Thi Nguyen T, Chung The H, Wick RR, Thwaites GE, Baker S, Holt KE.

J Antimicrob Chemother. 2016 Aug;71(8):2314-7. doi: 10.1093/jac/dkw173. Epub 2016 May 30.


ISMapper: identifying transposase insertion sites in bacterial genomes from short read sequence data.

Hawkey J, Hamidian M, Wick RR, Edwards DJ, Billman-Jacobe H, Hall RM, Holt KE.

BMC Genomics. 2015 Sep 3;16:667. doi: 10.1186/s12864-015-1860-2.


Bandage: interactive visualization of de novo genome assemblies.

Wick RR, Schultz MB, Zobel J, Holt KE.

Bioinformatics. 2015 Oct 15;31(20):3350-2. doi: 10.1093/bioinformatics/btv383. Epub 2015 Jun 22.


[Long-term investigation of the risk of malignant diseases following intravenous radium-224 treatment for ankylosing spondylitis].

Schulte TL, Nekolla EA, Wick RR.

Strahlenther Onkol. 2009 Sep;185(9):549-56. doi: 10.1007/s00066-009-2006-8. Epub 2009 Sep 12. German.


Incidence of leukaemia and other malignant diseases following injections of the short-lived alpha-emitter 224Ra into man.

Wick RR, Atkinson MJ, Nekolla EA.

Radiat Environ Biophys. 2009 Aug;48(3):287-94. doi: 10.1007/s00411-009-0227-y. Epub 2009 May 28.


Increased risk of myeloid leukaemia in patients with ankylosing spondylitis following treatment with radium-224.

Wick RR, Nekolla EA, Gaubitz M, Schulte TL.

Rheumatology (Oxford). 2008 Jun;47(6):855-9. doi: 10.1093/rheumatology/ken060. Epub 2008 Apr 4.


The European Radiobiology Archives (ERA)--content, structure and use illustrated by an example.

Gerber GB, Wick RR, Kellerer AM, Hopewell JW, Di Majo V, Dudoignon N, Gössner W, Stather J.

Radiat Prot Dosimetry. 2006;118(1):70-7. Epub 2005 Oct 21.


The European Radiobiology Archives (ERA), present state and future developments.

Gerber GB, Wick RR.

Radiat Prot Dosimetry. 2004;112(4):529-30.


Late effects in ankylosing spondylitis patients treated with 224Ra.

Wick RR, Nekolla EA, Gössner W, Kellerer AM.

Radiat Res. 1999 Dec;152(6 Suppl):S8-S11.


International radiobiology archives of long-term animal studies: structure, possible uses and potential extension.

Gerber GB, Wick RR, Watson CR, Gössner W, Kellerer AM.

Radiat Environ Biophys. 1999 Jul;38(2):75-9. Review.


224Ra: risk to bone and haematopoietic tissue in ankylosing spondylitis patients.

Wick RR, Chmelevsky D, Gössner W.

Strahlentherapie Sonderb. 1985;80:38-44. No abstract available.


Long-term clinical investigation of patients with ankylosing spondylitis treated with 224Ra.

Schmitt E, Rückbeil C, Wick RR.

Health Phys. 1983;44 Suppl 1:197-202.


Follow-up study of late effects in 224Ra treated ankylosing spondylitis patients.

Wick RR, Gössner W.

Health Phys. 1983;44 Suppl 1:187-95.


Distribution studies in mice of 224Ra in colloidal ("Peteosthor") and ionic preparations as used in human therapy.

Wick RR, Müller WA, Linzner U.

Health Phys. 1983;44 Suppl 1:580-3. No abstract available.


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