Publications

Latest publications

17 May 2018

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 B, William T, Handayuni I, Marfurt J, Trimarsanto H, Noviyanti R, Sriprawat K, Nosten F, Campino S, Clark TG, Anstey NA, Kwiatkowski DP, Price RN
Nature Communications 2018 DOI: To be added
7 Nov 2017

Molecular markers for artemisinin and partner drug resistance in natural Plasmodium falciparum populations following increased insecticide treated net coverage along the slope of mount Cameroon: cross-sectional study

Apinjoh TO, Mugri RN, Miotto O, Chi HF, Tata RB, Anchang-Kimbi JK, Fon EM, Tangoh DA, Nyingchu RV, Jacob C, Amato R, Djimde A, Kwiatkowski D, Achidi EA, Amambua-Ngwa A.
Infectious Diseases of Poverty 2017 6 136 DOI: 10.1186/s40249-017-0350-y
22 Aug 2017

Deconvolution of multiple infections in Plasmodium falciparum from high throughput sequencing data

Zhu SJ, Almagro-Garcia J, McVean G.
Bioinformatics 2017 DOI: 10.1093/bioinformatics/btx530
7 Jun 2017

Evidence from a natural experiment that malaria parasitemia is pathogenic in retinopathy-negative cerebral malaria

Small DS, Taylor TE, Postels DG, Beare NA, Cheng J, MacCormick IJ, Seydel KB
eLife 2017 6 e2369 DOI: 10.7554/eLife.23699
25 May 2017

Malaria host candidate genes validated by association with current, recent and historic measures of transmission intensity

Sepúlveda N, Manjurano A, Campino SG, Lemnge M, Lusingu J, Olomi R, Rockett KA, Hubbart C, Jeffreys A, Rowlands K; MalariaGen consortium, Clark TG, Riley EM, Drakeley CJ
The Journal of Infectious Diseases 2017 DOI: 10.1093/infdis/jix250
26 Jan 2017

THE REAL McCOIL: A method for the concurrent estimation of the complexity of infection and SNP allele frequency for malaria parasites

Chang HH, Worby CJ, Yeka A, Nankabirwa J, Kamya MR, Staedke SG, Dorsey G, Murphy M, Neafsey DE, Jeffreys AE, Hubbart C, Rockett KA, Amato R, Kwiatkowski DP, Buckee C, Greenhouse B
PLoS Computational Biology 2017 13(1) e1005348 DOI: 10.1371/journal.pcbi.1005348
25 Jan 2017

Plasmodium malariae and P. ovale genomes provide insights into malaria parasite evolution

Rutledge GG, Böhme U, Sanders M, Reid AJ, Cotton JA, Maiga-Ascofare O, Djimdé AA, Apinjoh TO, Amenga-Etego L, Manske M, Barnwell JW, Renaud F, Ollomo B, Prugnolle F, Anstey NM, Auburn S, Price RN, McCarthy JS, Kwiatkowski DP, Newbold C, Berriman M, Otto TD
Nature 2017 DOI: 10.1038/nature21038
24 Jan 2017

Culture adaptation of malaria parasites selects for convergent loss-of-function mutants

Claessens A, Affara M, Assefa SA, Kwiatkowski DP, Conway DJ
Scientific Reports 2017 7 41303 DOI: 10.1038/srep41303
19 Dec 2016

Extreme mutation bias and high AT content in Plasmodium falciparum

Hamilton WL, Claessens A, Otto TD, Kekre M, Fairhurst RM, Rayner JC, Kwiatkowski D
Nucleic Acids Research 2016 pii gkw1259 DOI: 10.1093/nar/gkw1259
14 Oct 2016

Independent origin and global distribution of distinct Plasmodium vivax Duffy Binding Protein gene duplications

Hostetler JB, Lo E, Kanjee U, Amaratunga C, Suon S, Sreng S, Mao S, Yewhalaw D, Mascarenhas A, Kwiatkowski DP, Ferreira MU, Rathod PK, Yan G, Fairhurst RM, Duraisingh MT, Rayner JC
PLoS Neglected Tropical Diseases 2016 10(10) e0005091 DOI: 10.1371/journal.pntd.0005091
8 Mar 2016

The ethics of sustainable genomic research in Africa

Parker M, Kwiatkowski DP
Genome Biology 2016 17 44 DOI: 10.1186/s13059-016-0914-3
16 Jul 2015

Comparison of genomic signatures of selection on Plasmodium falciparum between different regions of a country with high malaria endemicity

Duffy CW, Assefa SA, Abugri J, Amoako N, Owusu-Agyei S, Anyorigiya T, MacInnis B, Kwiatkowski DP, Conway DJ, Awandare GA
BMC Genomics 2015 16 527 DOI: 10.1186/s12864-015-1746-3
16 Jun 2015

Understandings of genomic research in developing countries: a qualitative study of the views of MalariaGEN participants in Mali

Traore K, Bull S, Niare A, Konate S, Thera MA, Kwiatkowski D, Parker M, Doumbo OK
BMC Medical Ethics 2015 16 42 DOI: 10.1186/s12910-015-0035-7
15 Apr 2015

K13-propeller polymorphisms in Plasmodium falciparum parasites from sub-Saharan Africa

Kamau E, Campino S, Amenga-Etego L, Drury E, Ishengoma D, Johnson K, Mumba D, Kekre M, Yavo W, Mead D, Bouyou-Akotet M, Apinjoh T, Golassa L, Randrianarivelojosia M, Andagalu B, Maiga-Ascofare O, Amambua-Ngwa A, Tindana P, Ghansah A, MacInnis B, Kwiatkowski D, Djimde AA
Journal of Infectious Diseases 2015 211(8) 1352-5 DOI: 10.1093/infdis/jiu608
24 Mar 2015

USP38, FREM3, SDC1, DDC, and LOC727982 Gene Polymorphisms and Differential Susceptibility to Severe Malaria in Tanzania

Manjurano A, Sepúlveda N, Nadjm B, Mtove G, Wangai H, Maxwell C, Olomi R, Reyburn H, Drakeley CJ, Riley EM, Clark TG; in Collaboration With MalariaGEN
Journal of Infectious Diseases 2015 212(7) 1129-39 DOI: 10.1093/infdis/jiv192
23 Feb 2015

Novel Insights Into the Protective Role of Hemoglobin S and C Against Plasmodium falciparum Parasitemia

Mangano VD, Kabore Y, Bougouma EC, Verra F, Sepulveda N, Bisseye C, Santolamazza F, Avellino P, Tiono AB, Diarra A, Nebie I, Rockett KA, Sirima SB, Modiano D; MalariaGEN Consortium
Journal of Infectious Diseases 2015 212(4) 626-34 DOI: 10.1093/infdis/jiv098
22 Feb 2015

G6PD gene variants and its association with malaria in a Sri Lankan population

Dewasurendra RL, Rockett KA, Fernando SD, Carter R, Kwiatkowski DP, Karunaweera ND; MalariaGEN Consortium
Malaria Journal 2015 14 93 DOI: 10.1186/s12936-015-0603-9
11 Feb 2015

African glucose-6-phosphate dehydrogenase alleles associated with protection from severe malaria in heterozygous females in Tanzania

Manjurano A, Sepulveda N, Nadjm B, Mtove G, Wangai H, Maxwell C, Olomi R, Reyburn H, Riley EM, Drakeley CJ, Clark TG; MalariaGEN Consortium
PloS Genetics 2015 11(2) e1004960 DOI: 10.1371/journal.pgen.1004960
15 Dec 2014

Whole-genome scans provide evidence of adaptive evolution in Malawian Plasmodium falciparum isolates

Ocholla H, Preston MD, Mipando M, Jensen AT, Campino S, MacInnis B, Alcock D, Terlouw A, Zongo I, Oudraogo JB, Djimde AA, Assefa S, Doumbo OK, Borrmann S, Nzila A, Marsh K, Fairhurst RM, Nosten F, Anderson TJ, Kwiatkowski DP, Craig A, Clark TG, Montgomery J
Journal of Infectious Diseases 2014 210(12) 1991-2000 DOI: 10.1093/infdis/jiu349
13 Aug 2014

Knowing who to trust: exploring the role of 'ethical metadata' in mediating risk of harm in collaborative genomics research in Africa

de Vries J, Williams TN, Bojang K, Kwiatkowski DP, Fitzpatrick R, Parker M
BMC Medical Ethics 2014 15 62 DOI: 10.1186/1472-6939-15-62
11 Jul 2014

Glucose-6-phosphate dehydrogenase polymorphisms and susceptibility to mild malaria in Dogon and Fulani, Mali

Maiga B, Dolo A, Campino S, Sepulveda N, Corran P, Rockett KA, Troye-Blomberg M, Doumbo OK, Clark TG
Malaria Journal 2014 13 270 DOI: 10.1186/1475-2875-13-270
25 Jun 2014

Adaptive introgression between Anopheles sibling species eliminates a major genomic island but not reproductive isolation

Clarkson CS, Weetman D, Essandoh J, Yawson AE, Maslen G, Manske M, Field SG, Webster M, Antão T, MacInnis B, Kwiatkowski D, Donnelly MJ
Nature Communications 2014 5 4248 DOI: 10.1038/ncomms5248
16 Jun 2014

Association of candidate gene polymorphisms and TGF-beta/IL-10 levels with malaria in three regions of Cameroon: a case-control study

Apinjoh TO, Anchang-Kimbi JK, Njua-Yafi C, Ngwai AN, Mugri RN, Clark TG, Rockett KA, Kwiatkowski DP, Achidi EA; MalariaGEN Consortium
Malaria Journal 2014 13 236 DOI: 10.1186/1475-2875-13-236
27 Nov 2013

Association of cytokine and Toll-like receptor gene polymorphisms with severe malaria in three regions of Cameroon

Apinjoh TO, Anchang-Kimbi JK, Njua-Yafi C, Mugri RN, Ngwai AN, Rockett KA, Mbunwe E, Besingi RN, Clark TG, Kwiatkowski DP, Achidi EA; MalariaGEN Consortium
PLoS One 2013 8(11) e81071 DOI: 10.1371/journal.pone.0081071
2 Oct 2013

Human candidate polymorphisms in sympatric ethnic groups differing in malaria susceptibility in Mali

Maiga B, Dolo A, Touré O, Dara V, Tapily A, Campino S, Sepulveda N, Risley P, Silva N, Corran P, Rockett KA, Kwiatkowski D; MalariaGEN Consortium, Clark TG, Troye-Blomberg M, Doumbo OK
PLoS One 2013 8(10) e75675 DOI: 10.1371/journal.pone.0075675
23 May 2013

Imputation-based meta-analysis of severe malaria in three African populations

Band G, Le QS, Jostins L, Pirinen M, Kivinen K, Jallow M, Sisay-Joof F, Bojang K, Pinder M, Sirugo G, Conway DJ, Nyirongo V, Kachala D, Molyneux M, Taylor T, Ndila C, Peshu N, Marsh K, Williams TN, Alcock D, Andrews R, Edkins S, Gray E, Hubbart C, Jeffreys A, Rowlands K, Schuldt K, Clark TG, Small KS, Teo YY, Kwiatkowski DP, Rockett KA, Barrett JC, Spencer CC; Malaria Genomic Epidemiology Network
PloS Genetics 2013 9(5) e1003509 DOI: 10.1371/journal.pgen.1003509
1 Nov 2012

Population genomic scan for candidate signatures of balancing selection to guide antigen characterization in malaria parasites

Amambua-Ngwa A, Tetteh KK, Manske M, Gomez-Escobar N, Stewart LB, Deerhake ME, Cheeseman IH, Newbold CI, Holder AA, Knuepfer E, Janha O, Jallow M, Campino S, Macinnis B, Kwiatkowski DP, Conway DJ
PLoS Genetics 2012 8(11) e1002992 DOI: 10.1371/journal.pgen.1002992
29 Oct 2012

Candidate human genetic polymorphisms and severe malaria in a Tanzanian population

Manjurano A, Clark TG, Nadjm B, Mtove G, Wangai H, Sepulveda N, Campino SG, Maxwell C, Olomi R, Rockett KR, Jeffreys A, MalariaGen Consortium, Riley EM, Reyburn H, Drakeley C
PLoS One 2012 7(10) e47463 DOI: 10.1371/journal.pone.0047463
5 Sep 2012

Candidate polymorphisms and severe malaria in a Malian population

Toure O, Konate S, Sissoko S, Niangaly A, Barry A, Sall AH, Diarra E, Poudiougou B, Sepulveda N, Campino S, Rockett KA, Clark TG, Thera MA, Doumbo O; in collaboration with the MalariaGEN Consortium
PLoS One 2012 7(9) e43987 DOI: 10.1371/journal.pone.0043987
1 Sep 2012

Variation in human genes encoding adhesion and proinflammatory molecules are associated with severe malaria in the Vietnamese

Dunstan SJ, Rockett KA, Quyen NT, Teo YY, Thai CQ, Hang NT, Jeffreys A, Clark TG, Small KS, Simmons CP, Day N, O'Riordan SE, Kwiatkowski DP, Farrar J, Phu NH, Hien TT; MalariaGEN Consortium
Genes Immunology 2012 13(6) 503-8 DOI: 10.1038/gene.2012.25