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Items: 1 to 20 of 228

1.

Zika might not be acting alone: Using an ecological study approach to investigate potential co-acting risk factors for an unusual pattern of microcephaly in Brazil.

Campos MC, Dombrowski JG, Phelan J, Marinho CRF, Hibberd M, Clark TG, Campino S.

PLoS One. 2018 Aug 15;13(8):e0201452. doi: 10.1371/journal.pone.0201452. eCollection 2018.

2.

Identifying mixed Mycobacterium tuberculosis infections from whole genome sequence data.

Sobkowiak B, Glynn JR, Houben RMGJ, Mallard K, Phelan JE, Guerra-Assunção JA, Banda L, Mzembe T, Viveiros M, McNerney R, Parkhill J, Crampin AC, Clark TG.

BMC Genomics. 2018 Aug 14;19(1):613. doi: 10.1186/s12864-018-4988-z.

3.

PrimedRPA: Primer design for Recombinase polymerase amplification assays.

Higgins M, Ravenhall M, Ward D, Phelan J, Ibrahim A, Forrest MS, Clark TG, Campino S.

Bioinformatics. 2018 Aug 8. doi: 10.1093/bioinformatics/bty701. [Epub ahead of print]

PMID:
30101342
4.

Evidence for Host-Bacterial Co-evolution via Genome Sequence Analysis of 480 Thai Mycobacterium tuberculosis Lineage 1 Isolates.

Palittapongarnpim P, Ajawatanawong P, Viratyosin W, Smittipat N, Disratthakit A, Mahasirimongkol S, Yanai H, Yamada N, Nedsuwan S, Imasanguan W, Kantipong P, Chaiyasirinroje B, Wongyai J, Toyo-Oka L, Phelan J, Parkhill J, Clark TG, Hibberd ML, Ruengchai W, Palittapongarnpim P, Juthayothin T, Tongsima S, Tokunaga K.

Sci Rep. 2018 Aug 2;8(1):11597. doi: 10.1038/s41598-018-29986-3.

5.

Human candidate gene polymorphisms and risk of severe malaria in children in Kilifi, Kenya: a case-control association study.

Ndila CM, Uyoga S, Macharia AW, Nyutu G, Peshu N, Ojal J, Shebe M, Awuondo KO, Mturi N, Tsofa B, Sepúlveda N, Clark TG, Band G, Clarke G, Rowlands K, Hubbart C, Jeffreys A, Kariuki S, Marsh K, Mackinnon M, Maitland K, Kwiatkowski DP, Rockett KA, Williams TN; MalariaGEN Consortium.

Lancet Haematol. 2018 Aug;5(8):e333-e345. doi: 10.1016/S2352-3026(18)30107-8. Epub 2018 Jul 20.

6.

Genomic analysis of a pre-elimination Malaysian Plasmodium vivax population reveals selective pressures and changing transmission dynamics.

Auburn S, Benavente ED, Miotto O, Pearson RD, Amato R, Grigg MJ, Barber BE, William T, Handayuni I, Marfurt J, Trimarsanto H, Noviyanti R, Sriprawat K, Nosten F, Campino S, Clark TG, Anstey NM, Kwiatkowski DP, Price RN.

Nat Commun. 2018 Jul 3;9(1):2585. doi: 10.1038/s41467-018-04965-4.

7.

Enrichment of clinically relevant organisms in spontaneous preterm delivered placenta and reagent contamination across all clinical groups in a large UK pregnancy cohort.

Leon LJ, Doyle R, Diez-Benavente E, Clark TG, Klein N, Stanier P, Moore GE.

Appl Environ Microbiol. 2018 May 18. pii: AEM.00483-18. doi: 10.1128/AEM.00483-18. [Epub ahead of print]

8.

Human Coronavirus NL63 Molecular Epidemiology and Evolutionary Patterns in Rural Coastal Kenya.

Kiyuka PK, Agoti CN, Munywoki PK, Njeru R, Bett A, Otieno JR, Otieno GP, Kamau E, Clark TG, van der Hoek L, Kellam P, Nokes DJ, Cotten M.

J Infect Dis. 2018 May 5;217(11):1728-1739. doi: 10.1093/infdis/jiy098.

9.

Global analysis of Plasmodium falciparum histidine-rich protein-2 (pfhrp2) and pfhrp3 gene deletions using whole-genome sequencing data and meta-analysis.

Sepúlveda N, Phelan J, Diez-Benavente E, Campino S, Clark TG, Hopkins H, Sutherland C, Drakeley CJ, Beshir KB.

Infect Genet Evol. 2018 May 2;62:211-219. doi: 10.1016/j.meegid.2018.04.039. [Epub ahead of print]

PMID:
29729386
10.

Use of whole genome sequencing in surveillance of drug resistant tuberculosis.

McNerney R, Zignol M, Clark TG.

Expert Rev Anti Infect Ther. 2018 May;16(5):433-442. doi: 10.1080/14787210.2018.1472577. Epub 2018 May 9.

PMID:
29718745
11.

Author Correction: Genome-wide analysis of multi- and extensively drug-resistant Mycobacterium tuberculosis.

Coll F, Phelan J, Hill-Cawthorne GA, Nair MB, Mallard K, Ali S, Abdallah AM, Alghamdi S, Alsomali M, Ahmed AO, Portelli S, Oppong Y, Alves A, Bessa TB, Campino S, Caws M, Chatterjee A, Crampin AC, Dheda K, Furnham N, Glynn JR, Grandjean L, Ha DM, Hasan R, Hasan Z, Hibberd ML, Joloba M, Jones-López EC, Matsumoto T, Miranda A, Moore DJ, Mocillo N, Panaiotov S, Parkhill J, Penha C, Perdigão J, Portugal I, Rchiad Z, Robledo J, Sheen P, Shesha NT, Sirgel FA, Sola C, Sousa EO, Streicher EM, Van Helden P, Viveiros M, Warren RM, McNerney R, Pain A, Clark TG.

Nat Genet. 2018 May;50(5):764. doi: 10.1038/s41588-018-0074-3.

PMID:
29674744
12.

Clonal expansion across the seas as seen through CPLP-TB database: A joint effort in cataloguing Mycobacterium tuberculosis genetic diversity in Portuguese-speaking countries.

Perdigão J, Silva C, Diniz J, Pereira C, Machado D, Ramos J, Silva H, Abilleira F, Brum C, Reis AJ, Macedo M, Scaini JL, Silva AB, Esteves L, Macedo R, Maltez F, Clemente S, Coelho E, Viegas S, Rabna P, Rodrigues A, Taveira N, Jordao L, Kritski A, Lapa E Silva JR, Mokrousov I, Couvin D, Rastogi N, Couto I, Pain A, McNerney R, Clark TG, von Groll A, Dalla-Costa ER, Rossetti ML, Silva PEA, Viveiros M, Portugal I.

Infect Genet Evol. 2018 Mar 17. pii: S1567-1348(18)30102-3. doi: 10.1016/j.meegid.2018.03.011. [Epub ahead of print]

13.

Population-based analysis of ocular Chlamydia trachomatis in trachoma-endemic West African communities identifies genomic markers of disease severity.

Last AR, Pickering H, Roberts CH, Coll F, Phelan J, Burr SE, Cassama E, Nabicassa M, Seth-Smith HMB, Hadfield J, Cutcliffe LT, Clarke IN, Mabey DCW, Bailey RL, Clark TG, Thomson NR, Holland MJ.

Genome Med. 2018 Feb 26;10(1):15. doi: 10.1186/s13073-018-0521-x.

14.

Novel genetic polymorphisms associated with severe malaria and under selective pressure in North-eastern Tanzania.

Ravenhall M, Campino S, Sepúlveda N, Manjurano A, Nadjm B, Mtove G, Wangai H, Maxwell C, Olomi R, Reyburn H, Drakeley CJ, Riley EM, Clark TG; MalariaGEN.

PLoS Genet. 2018 Jan 30;14(1):e1007172. doi: 10.1371/journal.pgen.1007172. eCollection 2018 Jan.

15.

Genome-wide analysis of multi- and extensively drug-resistant Mycobacterium tuberculosis.

Coll F, Phelan J, Hill-Cawthorne GA, Nair MB, Mallard K, Ali S, Abdallah AM, Alghamdi S, Alsomali M, Ahmed AO, Portelli S, Oppong Y, Alves A, Bessa TB, Campino S, Caws M, Chatterjee A, Crampin AC, Dheda K, Furnham N, Glynn JR, Grandjean L, Minh Ha D, Hasan R, Hasan Z, Hibberd ML, Joloba M, Jones-López EC, Matsumoto T, Miranda A, Moore DJ, Mocillo N, Panaiotov S, Parkhill J, Penha C, Perdigão J, Portugal I, Rchiad Z, Robledo J, Sheen P, Shesha NT, Sirgel FA, Sola C, Oliveira Sousa E, Streicher EM, Helden PV, Viveiros M, Warren RM, McNerney R, Pain A, Clark TG.

Nat Genet. 2018 Feb;50(2):307-316. doi: 10.1038/s41588-017-0029-0. Epub 2018 Jan 22. Erratum in: Nat Genet. 2018 Apr 19;:.

PMID:
29358649
16.

Methylation in Mycobacterium tuberculosis is lineage specific with associated mutations present globally.

Phelan J, de Sessions PF, Tientcheu L, Perdigao J, Machado D, Hasan R, Hasan Z, Bergval IL, Anthony R, McNerney R, Antonio M, Portugal I, Viveiros M, Campino S, Hibberd ML, Clark TG.

Sci Rep. 2018 Jan 9;8(1):160. doi: 10.1038/s41598-017-18188-y.

17.

A reference genome and methylome for the Plasmodium knowlesi A1-H.1 line.

Benavente ED, de Sessions PF, Moon RW, Grainger M, Holder AA, Blackman MJ, Roper C, Drakeley CJ, Pain A, Sutherland CJ, Hibberd ML, Campino S, Clark TG.

Int J Parasitol. 2018 Mar;48(3-4):191-196. doi: 10.1016/j.ijpara.2017.09.008. Epub 2017 Dec 16.

18.

Antiproliferative and apoptotic effects of xanthohumol in cholangiocarcinoma.

Walden D, Kunnimalaiyaan S, Sokolowski K, Clark TG, Kunnimalaiyaan M.

Oncotarget. 2017 Sep 30;8(50):88069-88078. doi: 10.18632/oncotarget.21422. eCollection 2017 Oct 20.

19.

Corrigendum to "Genetic diversity of next generation antimalarial targets: A baseline for drug resistance surveillance programmes" [Int. J. Parasitol. Drugs and Drug Resist. 7 (2017) 174-180].

Gomes AR, Ravenhall M, Benavente ED, Talman A, Sutherland C, Roper C, Clark TG, Campino S.

Int J Parasitol Drugs Drug Resist. 2017 Dec;7(3):433. doi: 10.1016/j.ijpddr.2017.11.001. Epub 2017 Nov 6. No abstract available.

20.

Frequent Undetected Ward-Based Methicillin-Resistant Staphylococcus aureus Transmission Linked to Patient Sharing Between Hospitals.

Tosas Auguet O, Stabler RA, Betley J, Preston MD, Dhaliwal M, Gaunt M, Ioannou A, Desai N, Karadag T, Batra R, Otter JA, Marbach H, Clark TG, Edgeworth JD.

Clin Infect Dis. 2018 Mar 5;66(6):840-848. doi: 10.1093/cid/cix901.

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