D

d-j-e, Holt, KE and Wyres, KL (2022). katholt/RedDog. [Data Collection]. Zenodo. https://doi.org/10.5281/zenodo.6460229

F

Foster-Nyarko, E, Holt, KE, Cottingham, H, Wick, R, Judd, LM, Lam, M, Wyres, KL, Stanton, T, Tsang, KK, David, S, Bridel, S, Palma, F, Aanensen, DM and Brisse, S (2023). Nanopore-only assemblies for genomic surveillance of the global priority drug-resistant pathogen, Klebsiella pneumoniae. [Data Collection]. Figshare. https://doi.org/10.6084/m9.figshare.19745608.v2

H

Heinz, E, Brindle, R, Morgan-McCalla, A, Peters, K and Thomson, N (2019). Supporting data for: "Caribbean multi-centre study of Klebsiella pneumoniae: whole-genome sequencing, antimicrobial resistance and virulence factors". [Data Collection]. Figshare. https://doi.org/10.6084/m9.figshare.7867760.v1

Holt, KE, Lam, M and Wick, R (2020). Kleborate v2.0.0. [Data Collection]. Zenodo. https://doi.org/10.5281/zenodo.4923014

L

London School of Hygiene & Tropical Medicine (2023). Data for: "Genomic diversity and antimicrobial resistance in clinical Klebsiella pneumoniae isolates from tertiary hospitals in Southern Ghana". [Data Collection]. NCBI Sequence Read Archive. https://trace.ncbi.nlm.nih.gov/Traces/study/?acc=PRJNA1052100

M

M. C. Lam, M, Wyres, KL, Duchêne, S, Wick, RR, Judd, LM, Gan, Y, Hoh, C, Archuleta, S, Molton, JS, Kalimuddin, S, Koh, TH, Passet, V, Brisse, S and Holt, KE (2018). Population genomics of hypervirulent Klebsiella pneumoniae clonal-group 23 reveals early emergence and rapid global dissemination. [Data Collection]. Nature Communications. https://doi.org/10.1038/s41467-018-05114-7

Moradigaravand, D, Martin, V, Peacock, S and Parkhill, J (2017). Evolution and Epidemiology of Multidrug-Resistant Klebsiella pneumoniae in the United Kingdom and Ireland. [Data Collection]. mBio. https://doi.org/10.1128/mBio.01976-16

Musicha, P, Msefula, CL, Mather, AE, Chaguza, C, Cain, AK, Peno, C, Kallonen, T, Khonga, M, Denis, B, Gray, KJ, Heyderman, RS, Thomson, NR, Everett, DB and Feasey, NA (2019). Genomic analysis of Klebsiella pneumoniae isolates from Malawi reveals acquisition of multiple ESBL determinants across diverse lineages. [Data Collection]. Journal of Antimicrobial Chemotherapy. https://doi.org/10.1093/jac/dkz032

R

Runcharoen, C, Moradigaravand, D, Blane, B, Paksanont, S, Thammachote, J, Anun, S, Parkhill, J, Chantratita, N and Peacock, SJ (2017). Whole genome sequencing reveals high-resolution epidemiological links between clinical and environmental Klebsiella pneumoniae. [Data Collection]. Figshare. https://doi.org/10.6084/m9.figshare.c.3673891

Ryan Wick, Holt, KE, marlam89, kelwyres, Maranga, M, Petit III, RA, da Silva, AG, Deveaud, E, Lampa, S and Stanton, T (2024). klebgenomics/Kleborate: v3.0.0. [Data Collection]. Zenodo. https://doi.org/10.5281/zenodo.13683348

W

Wick, R, kelwyres and Holt, KE (2022). katholt/Kaptive. [Data Collection]. Github. https://github.com/katholt/Kaptive

Wyres, KL, Nguyen, TNT, Lam, MMC, Judd, LM, van Vinh Chau, N, Dance, DAB, Ip, M, Karkey, A, Ling, CL, Miliya, T, Newton, PN, Lan, NPH, Sengduangphachanh, A, Turner, P, Veeraraghavan, B, Vinh, PV, Vongsouvath, M, Thomson, NR, Baker, S and Holt, KE (2020). Data for, "Genomic surveillance for hypervirulence and multi-drug resistance in invasive Klebsiella pneumoniae from south and southeast Asia.". [Data Collection]. Monash University. https://doi.org/10.26180/5c67982956721

Wyres, KL, Wick, RR, Judd, LM, Froumine, R, Tokolyi, A, Gorrie, CL, Lam, MM, Duchêne, S, Jenney, A and Holt, K (2019). Distinct evolutionary dynamics of horizontal gene transfer in drug resistant and virulent clones of Klebsiella pneumoniae. [Data Collection]. PLoS Genetics. https://doi.org/10.1371/journal.pgen.1008114