Items where Author is "Clark, Taane G"

Items where Author is "Clark, Taane G"

Number of items: 329.

Bibliographic data only

Apolipoproteins as predictors of ischaemic stroke in patients with a previous transient ischaemic attack. (2006) Bhatia, M; Howard, SC; Clark, TG; Neale, R; Qizilbash, N; Murphy, MFG; Rothwell, PM

Recurrence after abdominal surgery for Crohn's disease: relationship to disease site and surgical procedure. (2002) Borley, Neil R; Mortensen, Neil J McC; Chaudry, Mohammed A; Mohammed, Said; Warren, Bryan F; George, Bruce D; Clark, Taane; Jewell, Derek P; Kettlewell, Michael GW

Missing... presumed at random: cost-analysis of incomplete data. (2003) Briggs, Andrew; Clark, Taane; Wolstenholme, Jane; Clarke, Philip

Immune phenotype predicts risk for posttransplantation squamous cell carcinoma. (2010) Carroll, Robert P; Segundo, David San; Hollowood, Kevin; Marafioti, Teresa; Clark, Taane G; Harden, Paul N; Wood, Kathryn J

Long term risks of stroke, myocardial infarction, and vascular death in "low risk" patients with a non-recent transient ischaemic attack. (2003) Clark, TG; Murphy, MFG; Rothwell, PM

Developing a prognostic model in the presence of missing data: an ovarian cancer case study. (2003) Clark, Taane G; Altman, Douglas G

Quantification of the completeness of follow-up. (2002) Clark, Taane G; Altman, Douglas G; De Stavola, Bianca L

A Bayesian approach using covariance of single nucleotide polymorphism data to detect differences in linkage disequilibrium patterns between groups of individuals. (2010) Clark, Taane G; Campino, Susana G; Anastasi, Elisa; Auburn, Sarah; Teo, Yik Y; Small, Kerrin; Rockett, Kirk A; Kwiatkowski, Dominic P; Holmes, Christopher C

Bayesian logistic regression using a perfect phylogeny. (2007) Clark, Taane G; De Iorio, Maria; Griffiths, Robert C

Finding associations in dense genetic maps: a genetic algorithm approach. (2005) Clark, Taane G; De Iorio, Maria; Griffiths, Robert C; Farrall, Martin

An Evolutionary Algorithm to Find Associations in Dense Genetic Maps. (2008) Clark, Taane G; De Iorio, Maria; Griffths, Robert C

Tumor necrosis factor and lymphotoxin-alpha polymorphisms and severe malaria in African populations. (2009) Clark, Taane G; Diakite, Mahamadou; Auburn, Sarah; Campino, Susana; Fry, Andrew E; Green, Angela; Richardson, Anna; Small, Kerrin; Teo, Yik Y; Wilson, Jonathan; Jallow, Muminatou; Sisay-Joof, Fatou; Pinder, Margaret; Griffiths, Michael J; Peshu, Norbert; Williams, Thomas N; Marsh, Kevin; Molyneux, Malcolm E; Taylor, Terrie E; Rockett, Kirk A; Kwiatkowski, Dominic P

Allelic heterogeneity of G6PD deficiency in West Africa and severe malaria susceptibility. (2009) Clark, Taane G; Fry, Andrew E; Auburn, Sarah; Campino, Susana; Diakite, Mahamadou; Green, Angela; Richardson, Anna; Teo, Yik Y; Small, Kerrin; Wilson, Jonathan; Jallow, Muminatou; Sisay-Joof, Fatou; Pinder, Margaret; Sabeti, Pardis; Kwiatkowski, Dominic P; Rockett, Kirk A

Does smoking influence survival in cancer patients through effects on respiratory and vascular disease? (2006) Clark, Taane G; Murphy, Michael FG; Hey, Kate; Drury, Mark; Cheng, KK; Aveyard, Paul

Validation of a new prognostic index for advanced epithelial ovarian cancer: results from its application to a UK-based cohort. (2007) Clark, Taane G; Stewart, Moira; Rye, Tzyvia; Smyth, John F; Gourley, Charlie

Distinct phases of blood gene expression pattern through tuberculosis treatment reflect modulation of the humoral immune response. (2012) Cliff, Jacqueline M; Lee, Ji-Sook; Constantinou, Nicholas; Cho, Jang-Eun; Clark, Taane G; Ronacher, Katharina; King, Elizabeth C; Lukey, Pauline T; Duncan, Ken; Van Helden, Paul D; Walzl, Gerhard; Dockrell, Hazel M

Author Correction: Genome-wide analysis of multi- and extensively drug-resistant Mycobacterium tuberculosis. (2018) Coll, Francesc; Phelan, Jody; Hill-Cawthorne, Grant A; Nair, Mridul B; Mallard, Kim; Ali, Shahjahan; Abdallah, Abdallah M; Alghamdi, Saad; Alsomali, Mona; Ahmed, Abdallah O; Portelli, Stephanie; Oppong, Yaa; Alves, Adriana; Bessa, Theolis Barbosa; Campino, Susana; Caws, Maxine; Chatterjee, Anirvan; Crampin, Amelia C; Dheda, Keertan; Furnham, Nicholas; Glynn, Judith R; Grandjean, Louis; Ha, Dang Minh; Hasan, Rumina; Hasan, Zahra; Hibberd, Martin L; Joloba, Moses; Jones-López, Edward C; Matsumoto, Tomoshige; Miranda, Anabela; Moore, David J; Mocillo, Nora; Panaiotov, Stefan; Parkhill, Julian; Penha, Carlos; Perdigão, João; Portugal, Isabel; Rchiad, Zineb; Robledo, Jaime; Sheen, Patricia; Shesha, Nashwa Talaat; Sirgel, Frik A; Sola, Christophe; Sousa, Erivelton Oliveira; Streicher, Elizabeth M; Van Helden, Paul; Viveiros, Miguel; Warren, Robert M; McNerney, Ruth; Pain, Arnab; Clark, Taane G

Multidrug-Resistant Mycobacterium tuberculosis of the Latin American Mediterranean Lineage, Wrongly Identified as Mycobacterium pinnipedii (Spoligotype International Type 863 [SIT863]), Causing Active Tuberculosis in South Brazil. (2015) Dalla Costa, Elis R; Vasconcelos, Sidra EG; Esteves, Leonardo S; Gomes, Harrison M; Gomes, Lia L; da Silva, Pedro Almeida; Perdigão, João; Portugal, Isabel; Viveiros, Miguel; McNerney, Ruth; Pain, Arnab; Clark, Taane G; Rastogi, Nalin; Unis, Gisela; Rossetti, Maria Lucia R; Suffys, Philip Noel

The epidemiology, pathogenesis, transmission, diagnosis, and management of multidrug-resistant, extensively drug-resistant, and incurable tuberculosis. (2016) Dheda, Keertan; Gumbo, Tawanda; Maartens, Gary; Dooley, Kelly E; McNerney, Ruth; Murray, Megan; Furin, Jennifer; Nardell, Edward A; London, Leslie; Lessem, Erica; Theron, Grant; van Helden, Paul; Niemann, Stefan; Merker, Matthias; Dowdy, David; Van Rie, Annelies; Siu, Gilman KH; Pasipanodya, Jotam G; Rodrigues, Camilla; Clark, Taane G; Sirgel, Frik A; Esmail, Aliasgar; Lin, Hsien-Ho; Atre, Sachin R; Schaaf, H Simon; Chang, Kwok Chiu; Lange, Christoph; Nahid, Payam; Udwadia, Zarir F; Horsburgh, C Robert; Churchyard, Gavin J; Menzies, Dick; Hesseling, Anneke C; Nuermberger, Eric; McIlleron, Helen; Fennelly, Kevin P; Goemaere, Eric; Jaramillo, Ernesto; Low, Marcus; Jara, Carolina Morán; Padayatchi, Nesri; Warren, Robin M

Outcomes, infectiousness, and transmission dynamics of patients with extensively drug-resistant tuberculosis and home-discharged patients with programmatically incurable tuberculosis: a prospective cohort study. (2016) Dheda, Keertan; Limberis, Jason D; Pietersen, Elize; Phelan, Jody; Esmail, Aliasgar; Lesosky, Maia; Fennelly, Kevin P; Te Riele, Julian; Mastrapa, Barbara; Streicher, Elizabeth M; Dolby, Tania; Abdallah, Abdallah M; Ben-Rached, Fathia; Simpson, John; Smith, Liezel; Gumbo, Tawanda; van Helden, Paul; Sirgel, Frederick A; McNerney, Ruth; Theron, Grant; Pain, Arnab; Clark, Taane G; Warren, Robin M

A genetic association study in the Gambia using tagging polymorphisms in the major histocompatibility complex class III region implicates a HLA-B associated transcript 2 polymorphism in severe malaria susceptibility. (2009) Diakite, Mahamadou; Clark, Taane G; Auburn, Sarah; Campino, Susana; Fry, Andrew E; Green, Angela; Morris, Andrew P; Richardson, Anna; Jallow, Muminatou; Sisay-Joof, Fatou; Pinder, Margaret; Kwiatkowski, Dominic P; Rockett, Kirk A

Whole genome sequencing of multiple Leishmania donovani clinical isolates provides insights into population structure and mechanisms of drug resistance. (2011) Downing, Tim; Imamura, Hideo; Decuypere, Saskia; Clark, Taane G; Coombs, Graham H; Cotton, James A; Hilley, James D; de Doncker, Simonne; Maes, Ilse; Mottram, Jeremy C; Quail, Mike A; Rijal, Suman; Sanders, Mandy; Schönian, Gabriele; Stark, Olivia; Sundar, Shyam; Vanaerschot, Manu; Hertz-Fowler, Christiane; Dujardin, Jean-Claude; Berriman, Matthew

Variation in human genes encoding adhesion and proinflammatory molecules are associated with severe malaria in the Vietnamese. (2012) Dunstan, SJ; Rockett, KA; Quyen, NTN; 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

Identification and analysis of functional elements in 1% of the human genome by the ENCODE pilot project. (2007) ENCODE Project Consortium; Birney, Ewan; Stamatoyannopoulos, John A; Dutta, Anindya; Guigó, Roderic; Gingeras, Thomas R; Margulies, Elliott H; Weng, Zhiping; Snyder, Michael; Dermitzakis, Emmanouil T; Thurman, Robert E; Kuehn, Michael S; Taylor, Christopher M; Neph, Shane; Koch, Christoph M; Asthana, Saurabh; Malhotra, Ankit; Adzhubei, Ivan; Greenbaum, Jason A; Andrews, Robert M; Flicek, Paul; Boyle, Patrick J; Cao, Hua; Carter, Nigel P; Clelland, Gayle K; Davis, Sean; Day, Nathan; Dhami, Pawandeep; Dillon, Shane C; Dorschner, Michael O; Fiegler, Heike; Giresi, Paul G; Goldy, Jeff; Hawrylycz, Michael; Haydock, Andrew; Humbert, Richard; James, Keith D; Johnson, Brett E; Johnson, Ericka M; Frum, Tristan T; Rosenzweig, Elizabeth R; Karnani, Neerja; Lee, Kirsten; Lefebvre, Gregory C; Navas, Patrick A; Neri, Fidencio; Parker, Stephen CJ; Sabo, Peter J; Sandstrom, Richard; Shafer, Anthony; Vetrie, David; Weaver, Molly; Wilcox, Sarah; Yu, Man; Collins, Francis S; Dekker, Job; Lieb, Jason D; Tullius, Thomas D; Crawford, Gregory E; Sunyaev, Shamil; Noble, William S; Dunham, Ian; Denoeud, France; Reymond, Alexandre; Kapranov, Philipp; Rozowsky, Joel; Zheng, Deyou; Castelo, Robert; Frankish, Adam; Harrow, Jennifer; Ghosh, Srinka; Sandelin, Albin; Hofacker, Ivo L; Baertsch, Robert; Keefe, Damian; Dike, Sujit; Cheng, Jill; Hirsch, Heather A; Sekinger, Edward A; Lagarde, Julien; Abril, Josep F; Shahab, Atif; Flamm, Christoph; Fried, Claudia; Hackermüller, Jörg; Hertel, Jana; Lindemeyer, Manja; Missal, Kristin; Tanzer, Andrea; Washietl, Stefan; Korbel, Jan; Emanuelsson, Olof; Pedersen, Jakob S; Holroyd, Nancy; Taylor, Ruth; Swarbreck, David; Matthews, Nicholas; Dickson, Mark C; Thomas, Daryl J; Weirauch, Matthew T; Gilbert, James; Drenkow, Jorg; Bell, Ian; Zhao, XiaoDong; Srinivasan, KG; Sung, Wing-Kin; Ooi, Hong Sain; Chiu, Kuo Ping; Foissac, Sylvain; Alioto, Tyler; Brent, Michael; Pachter, Lior; Tress, Michael L; Valencia, Alfonso; Choo, Siew Woh; Choo, Chiou Yu; Ucla, Catherine; Manzano, Caroline; Wyss, Carine; Cheung, Evelyn; Clark, Taane G; Brown, James B; Ganesh, Madhavan; Patel, Sandeep; Tammana, Hari; Chrast, Jacqueline; Henrichsen, Charlotte N; Kai, Chikatoshi; Kawai, Jun; Nagalakshmi, Ugrappa; Wu, Jiaqian; Lian, Zheng; Lian, Jin; Newburger, Peter; Zhang, Xueqing; Bickel, Peter; Mattick, John S; Carninci, Piero; Hayashizaki, Yoshihide; Weissman, Sherman; Hubbard, Tim; Myers, Richard M; Rogers, Jane; Stadler, Peter F; Lowe, Todd M; Wei, Chia-Lin; Ruan, Yijun; Struhl, Kevin; Gerstein, Mark; Antonarakis, Stylianos E; Fu, Yutao; Green, Eric D; Karaöz, Ulaş; Siepel, Adam; Taylor, James; Liefer, Laura A; Wetterstrand, Kris A; Good, Peter J; Feingold, Elise A; Guyer, Mark S; Cooper, Gregory M; Asimenos, George; Dewey, Colin N; Hou, Minmei; Nikolaev, Sergey; Montoya-Burgos, Juan I; Löytynoja, Ari; Whelan, Simon; Pardi, Fabio; Massingham, Tim; Huang, Haiyan; Zhang, Nancy R; Holmes, Ian; Mullikin, James C; Ureta-Vidal, Abel; Paten, Benedict; Seringhaus, Michael; Church, Deanna; Rosenbloom, Kate; Kent, W James; Stone, Eric A; NISC Comparative Sequencing Program; Baylor College of Medicine Human Genome Sequencing Center; Washington University Genome Sequencing Center; Broad Institute; Children's Hospital Oakland Research Institute; Batzoglou, Serafim; Goldman, Nick; Hardison, Ross C; Haussler, David; Miller, Webb; Sidow, Arend; Trinklein, Nathan D; Zhang, Zhengdong D; Barrera, Leah; Stuart, Rhona; King, David C; Ameur, Adam; Enroth, Stefan; Bieda, Mark C; Kim, Jonghwan; Bhinge, Akshay A; Jiang, Nan; Liu, Jun; Yao, Fei; Vega, Vinsensius B; Lee, Charlie WH; Ng, Patrick; Shahab, Atif; Yang, Annie; Moqtaderi, Zarmik; Zhu, Zhou; Xu, Xiaoqin; Squazzo, Sharon; Oberley, Matthew J; Inman, David; Singer, Michael A; Richmond, Todd A; Munn, Kyle J; Rada-Iglesias, Alvaro; Wallerman, Ola; Komorowski, Jan; Fowler, Joanna C; Couttet, Phillippe; Bruce, Alexander W; Dovey, Oliver M; Ellis, Peter D; Langford, Cordelia F; Nix, David A; Euskirchen, Ghia; Hartman, Stephen; Urban, Alexander E; Kraus, Peter; Van Calcar, Sara; Heintzman, Nate; Kim, Tae Hoon; Wang, Kun; Qu, Chunxu; Hon, Gary; Luna, Rosa; Glass, Christopher K; Rosenfeld, M Geoff; Aldred, Shelley Force; Cooper, Sara J; Halees, Anason; Lin, Jane M; Shulha, Hennady P; Zhang, Xiaoling; Xu, Mousheng; Haidar, Jaafar NS; Yu, Yong; Ruan, Yijun; Iyer, Vishwanath R; Green, Roland D; Wadelius, Claes; Farnham, Peggy J; Ren, Bing; Harte, Rachel A; Hinrichs, Angie S; Trumbower, Heather; Clawson, Hiram; Hillman-Jackson, Jennifer; Zweig, Ann S; Smith, Kayla; Thakkapallayil, Archana; Barber, Galt; Kuhn, Robert M; Karolchik, Donna; Armengol, Lluis; Bird, Christine P; de Bakker, Paul IW; Kern, Andrew D; Lopez-Bigas, Nuria; Martin, Joel D; Stranger, Barbara E; Woodroffe, Abigail; Davydov, Eugene; Dimas, Antigone; Eyras, Eduardo; Hallgrímsdóttir, Ingileif B; Huppert, Julian; Zody, Michael C; Abecasis, Gonçalo R; Estivill, Xavier; Bouffard, Gerard G; Guan, Xiaobin; Hansen, Nancy F; Idol, Jacquelyn R; Maduro, Valerie VB; Maskeri, Baishali; McDowell, Jennifer C; Park, Morgan; Thomas, Pamela J; Young, Alice C; Blakesley, Robert W; Muzny, Donna M; Sodergren, Erica; Wheeler, David A; Worley, Kim C; Jiang, Huaiyang; Weinstock, George M; Gibbs, Richard A; Graves, Tina; Fulton, Robert; Mardis, Elaine R; Wilson, Richard K; Clamp, Michele; Cuff, James; Gnerre, Sante; Jaffe, David B; Chang, Jean L; Lindblad-Toh, Kerstin; Lander, Eric S; Koriabine, Maxim; Nefedov, Mikhail; Osoegawa, Kazutoyo; Yoshinaga, Yuko; Zhu, Baoli; de Jong, Pieter J

Sequence-level population simulations over large genomic regions. (2007) Hoggart, Clive J; Chadeau-Hyam, Marc; Clark, Taane G; Lampariello, Riccardo; Whittaker, John C; De Iorio, Maria; Balding, David J

Genome-wide significance for dense SNP and resequencing data. (2008) Hoggart, Clive J; Clark, Taane G; De Iorio, Maria; Whittaker, John C; Balding, David J

Genome-wide and fine-resolution association analysis of malaria in West Africa. (2009) Jallow, Muminatou; Teo, Yik Ying; Small, Kerrin S; Rockett, Kirk A; Deloukas, Panos; Clark, Taane G; Kivinen, Katja; Bojang, Kalifa A; Conway, David J; Pinder, Margaret; Sirugo, Giorgio; Sisay-Joof, Fatou; Usen, Stanley; Auburn, Sarah; Bumpstead, Suzannah J; Campino, Susana; Coffey, Alison; Dunham, Andrew; Fry, Andrew E; Green, Angela; Gwilliam, Rhian; Hunt, Sarah E; Inouye, Michael; Jeffreys, Anna E; Mendy, Alieu; Palotie, Aarno; Potter, Simon; Ragoussis, Jiannis; Rogers, Jane; Rowlands, Kate; Somaskantharajah, Elilan; Whittaker, Pamela; Widden, Claire; Donnelly, Peter; Howie, Bryan; Marchini, Jonathan; Morris, Andrew; SanJoaquin, Miguel; Achidi, Eric Akum; Agbenyega, Tsiri; Allen, Angela; Amodu, Olukemi; Corran, Patrick; Djimde, Abdoulaye; Dolo, Amagana; Doumbo, Ogobara K; Drakeley, Chris; Dunstan, Sarah; Evans, Jennifer; Farrar, Jeremy; Fernando, Deepika; Hien, Tran Tinh; Horstmann, Rolf D; Ibrahim, Muntaser; Karunaweera, Nadira; Kokwaro, Gilbert; Koram, Kwadwo A; Lemnge, Martha; Makani, Julie; Marsh, Kevin; Michon, Pascal; Modiano, David; Molyneux, Malcolm E; Mueller, Ivo; Parker, Michael; Peshu, Norbert; Plowe, Christopher V; Puijalon, Odile; Reeder, John; Reyburn, Hugh; Riley, Eleanor M; Sakuntabhai, Anavaj; Singhasivanon, Pratap; Sirima, Sodiomon; Tall, Adama; Taylor, Terrie E; Thera, Mahamadou; Troye-Blomberg, Marita; Williams, Thomas N; Wilson, Michael; Kwiatkowski, Dominic P; Wellcome Trust Case Control Consortium; Malaria Genomic Epidemiology Network

Polymorphisms in dopamine metabolic enzymes and tobacco consumption in smokers: seeking confirmation of the association in a follow-up study. (2002) Johnstone, Elaine C; Clark, Taane G; Griffiths, Siân-Elin; Murphy, Michael F; Walton, Robert T

A transcriptional switch underlies commitment to sexual development in malaria parasites. (2014) Kafsack, Björn FC; Rovira-Graells, Núria; Clark, Taane G; Bancells, Cristina; Crowley, Valerie M; Campino, Susana G; Williams, April E; Drought, Laura G; Kwiatkowski, Dominic P; Baker, David A; Cortés, Alfred; Llinás, Manuel

Single nucleotide polymorphisms in efflux pumps genes in extensively drug resistant Mycobacterium tuberculosis isolates from Pakistan. (2017) Kanji, Akbar; Hasan, Rumina; Ali, Asho; Zaver, Ambreen; Zhang, Ying; Imtiaz, Kehkashan; Shi, Wanliang; Clark, Taane G; McNerney, Ruth; Phelan, Jody; Rao, Shoaib; Shafiq, Samreen; Hasan, Zahra

HUMAN GENETIC POLYMORPHISMS AND THE RISK OF MALARIA-ASSOCIATED SEIZURES IN AFRICAN POPULATIONS. (2011) Kariuki, SM; Rockett, K; Clark, TG; Reyburn, H; Agbenyega, T; Taylor, TE; Williams, TN; Newton, CR

Estimating the number of coding mutations in genotypic and phenotypic driven N-ethyl-N-nitrosourea (ENU) screens: revisited. (2007) Keays, David A; Clark, Taane G; Campbell, Thomas G; Broxholme, John; Valdar, William

Estimating the number of coding mutations in genotypic- and phenotypic-driven N-ethyl-N-nitrosourea (ENU) screens. (2006) Keays, David A; Clark, Taane G; Flint, Jonathan

Genomic diversity in candidate virulence-associated genes in clinical strains of ocular Chlamydia trachomatis from a trachoma-hyperendemic population on the Bijagós Archipelago of Guinea Bissau in West Africa. (2013) Last, A; Cassama, E; Nabicassa, M; Clark, T; Coll, F; Gundogdu, O; Burr, S; Cutcliffe, L; Clarke, I; Thompson, N; Mabey, D; Bailey, R; Holland, M

Use of purified Clostridium difficile spores to facilitate evaluation of health care disinfection regimens. (2010) Lawley, Trevor D; Clare, Simon; Deakin, Laura J; Goulding, David; Yen, Jennifer L; Raisen, Claire; Brandt, Cordelia; Lovell, Jon; Cooke, Fiona; Clark, Taane G; Dougan, Gordon

Detecting and characterizing genomic signatures of positive selection in global populations. (2013) Liu, Xuanyao; Ong, Rick Twee-Hee; Pillai, Esakimuthu Nisha; Elzein, Abier M; Small, Kerrin S; Clark, Taane G; Kwiatkowski, Dominic P; Teo, Yik-Ying

Interferon regulatory factor-1 polymorphisms are associated with the control of Plasmodium falciparum infection. (2008) Mangano, VD; Luoni, G; Rockett, KA; Sirima, BS; Konaté, A; Forton, J; Clark, TG; Bancone, G; Sadighi Akha, E; Kwiatkowski, DP; Modiano, D

Use of whole genome sequencing in surveillance of drug resistant tuberculosis. (2018) McNerney, Ruth; Zignol, Matteo; Clark, Taane G

Lack of association of the COMT (Val158/108 Met) gene and schizophrenia: a meta-analysis of case-control studies. (2005) Munafò, MR; Bowes, L; Clark, TG; Flint, J

Does measurement instrument moderate the association between the serotonin transporter gene and anxiety-related personality traits? A meta-analysis. (2005) Munafò, MR; Clark, T; Flint, J

Are there sex differences in the association between the 5HTT gene and neuroticism? A meta-analysis. (2004) Munafò, MR; Clark, TG; Flint, J

Genetic polymorphisms and personality in healthy adults: a systematic review and meta-analysis. (2003) Munafò, MR; Clark, TG; Moore, LR; Payne, E; Walton, R; Flint, J

Association of the NRG1 gene and schizophrenia: a meta-analysis. (2006) Munafò, MR; Thiselton, DL; Clark, TG; Flint, J

Assessing publication bias in genetic association studies: evidence from a recent meta-analysis. (2004) Munafò, Marcus R; Clark, Taane G; Flint, Jonathan

Neuroticism mediates the association of the serotonin transporter gene with lifetime major depression. (2006) Munafò, Marcus R; Clark, Taane G; Roberts, Kate H; Johnstone, Elaine C

Personality and smoking status: a meta-analysis. (2007) Munafò, Marcus R; Zetteler, Jessica I; Clark, Taane G

The genetic basis for smoking behavior: a systematic review and meta-analysis. (2004) Munafò, Marcus; Clark, Taane; Johnstone, Elaine; Murphy, Michael; Walton, Robert

The genome of the simian and human malaria parasite Plasmodium knowlesi. (2008) Pain, A; Böhme, U; Berry, AE; Mungall, K; Finn, RD; Jackson, AP; Mourier, T; Mistry, J; Pasini, EM; Aslett, MA; Balasubrammaniam, S; Borgwardt, K; Brooks, K; Carret, C; Carver, TJ; Cherevach, I; Chillingworth, T; Clark, TG; Galinski, MR; Hall, N; Harper, D; Harris, D; Hauser, H; Ivens, A; Janssen, CS; Keane, T; Larke, N; Lapp, S; Marti, M; Moule, S; Meyer, IM; Ormond, D; Peters, N; Sanders, M; Sanders, S; Sargeant, TJ; Simmonds, M; Smith, F; Squares, R; Thurston, S; Tivey, AR; Walker, D; White, B; Zuiderwijk, E; Churcher, C; Quail, MA; Cowman, AF; Turner, CMR; Rajandream, MA; Kocken, CHM; Thomas, AW; Newbold, CI; Barrell, BG; Berriman, M

Expression profile of wild-type ETV6 in childhood acute leukaemia. (2003) Patel, Naina; Goff, Lindsey K; Clark, Taane; Ford, Anthony M; Foot, Nicola; Lillington, Debra; Hing, Sandra; Pritchard-Jones, Kathy; Jones, Louise K; Saha, Vaskar

Fibrinogen concentration and risk of ischemic stroke and acute coronary events in 5113 patients with transient ischemic attack and minor ischemic stroke. (2004) Rothwell, Peter M; Howard, Sally C; Power, Dermot A; Gutnikov, Sergei A; Algra, Ale; van Gijn, Jan; Clark, Tanne G; Murphy, Michael FG; Warlow, Charles P

MET and autism susceptibility: family and case-control studies. (2009) Sousa, Inês; Clark, Taane G; Toma, Claudio; Kobayashi, Kazuhiro; Choma, Maja; Holt, Richard; Sykes, Nuala H; Lamb, Janine A; Bailey, Anthony J; Battaglia, Agatino; Maestrini, Elena; Monaco, Anthony P; International Molecular Genetic Study of Autism Consortium (IMGS

Independent emergence of artemisinin resistance mutations among Plasmodium falciparum in Southeast Asia. (2014) Takala-Harrison, Shannon; Jacob, Christopher G; Arze, Cesar; Cummings, Michael P; Silva, Joana C; Dondorp, Arjen M; Fukuda, Mark M; Hien, Tran Tinh; Mayxay, Mayfong; Noedl, Harald; Nosten, Francois; Kyaw, Myat P; Nhien, Nguyen Thanh Thuy; Imwong, Mallika; Bethell, Delia; Se, Youry; Lon, Chanthap; Tyner, Stuart D; Saunders, David L; Ariey, Frederic; Mercereau-Puijalon, Odile; Menard, Didier; Newton, Paul N; Khanthavong, Maniphone; Hongvanthong, Bouasy; Starzengruber, Peter; Fuehrer, Hans-Peter; Swoboda, Paul; Khan, Wasif A; Phyo, Aung Pyae; Nyunt, Myaing M; Nyunt, Myat H; Brown, Tyler S; Adams, Matthew; Pepin, Christopher S; Bailey, Jason; Tan, John C; Ferdig, Michael T; Clark, Taane G; Miotto, Olivo; MacInnis, Bronwyn; Kwiatkowski, Dominic P; White, Nicholas J; Ringwald, Pascal; Plowe, Christopher V

Perturbation analysis: a simple method for filtering SNPs with erroneous genotyping in genome-wide association studies. (2008) Teo, YY; Small, KS; Clark, TG; Kwiatkowski, DP

Genome-wide comparisons of variation in linkage disequilibrium. (2009) Teo, Yik Y; Fry, Andrew E; Bhattacharya, Kanishka; Small, Kerrin S; Kwiatkowski, Dominic P; Clark, Taane G

On the usage of HWE for identifying genotyping errors. (2007) Teo, Yik Y; Fry, Andrew E; Clark, Taane G; Tai, ES; Seielstad, Mark

Assessing genuine parents-offspring trios for genetic association studies. (2009) Teo, Yik Y; Fry, Andrew E; Sanjoaquin, Miguel A; Pederson, Bonnie; Small, Kerrin S; Rockett, Kirk A; Kwiatkowski, Dominic P; Clark, Taane G

A genotype calling algorithm for the Illumina BeadArray platform. (2007) Teo, Yik Y; Inouye, Michael; Small, Kerrin S; Gwilliam, Rhian; Deloukas, Panagiotis; Kwiatkowski, Dominic P; Clark, Taane G

Power consequences of linkage disequilibrium variation between populations. (2009) Teo, Yik Y; Small, Kerrin S; Fry, Andrew E; Wu, Yumeng; Kwiatkowski, Dominic P; Clark, Taane G

Random errors in the measurement of 10 cardiovascular risk factors. (2001) Whitlock, G; Clark, T; Vander Hoorn, S; Rodgers, A; Jackson, R; Norton, R; MacMahon, S

Motor vehicle driver injury and marital status: a cohort study with prospective and retrospective driver injuries. (2004) Whitlock, G; Norton, R; Clark, T; Jackson, R; MacMahon, S

Motor vehicle driver injury and socioeconomic status: a cohort study with prospective and retrospective driver injuries. (2003) Whitlock, G; Norton, R; Clark, T; Pledger, M; Jackson, R; MacMahon, S

The effect of missing values for covariates. (2002) Whitlock, Gary; Clark, Taane

Is body mass index a risk factor for motor vehicle driver injury? A cohort study with prospective and retrospective outcomes. (2003) Whitlock, Gary; Norton, Robyn; Clark, Taane; Jackson, Rodney; MacMahon, Stephen

Association of the dopamine-β-hydroxylase gene with nicotine dependence: No evidence for mediation by personality. (2005) Zetteler, Jessica I; Clark, Taane G; Johnstone, Elaine C; Munafò, Marcus R

Public

Genomic expression catalogue of a global collection of BCG vaccine strains show evidence for highly diverged metabolic and cell-wall adaptations. (2015) Abdallah, Abdallah M; Hill-Cawthorne, Grant A; Otto, Thomas D; Coll, Francesc; Guerra-Assunção, José Afonso; Gao, Ge; Naeem, Raeece; Ansari, Hifzur; Malas, Tareq B; Adroub, Sabir A; Verboom, Theo; Ummels, Roy; Zhang, Huoming; Panigrahi, Aswini Kumar; McNerney, Ruth; Brosch, Roland; Clark, Taane G; Behr, Marcel A; Bitter, Wilbert; Pain, Arnab

A genomic investigation into three malaria vectors: An. darlingi, An. funestus, and An. stephensi. (2024) Acford-Palmer, H

Application of a targeted amplicon sequencing panel to screen for insecticide resistance mutations in Anopheles darlingi populations from Brazil. (2025) Acford-Palmer, Holly; Andrade, Alice O; Phelan, Jody E; Santana, Rosa A; Lopes, Stefanie CP; Medeiros, Jansen F; Clark, Taane G; Araujo, Maisa S; Campino, Susana

Genome wide population genetics and molecular surveillance of insecticide resistance in Anopheles stephensi mosquitoes from Awash Sebat Kilo in Ethiopia. (2025) Acford-Palmer, Holly; Tadesse, Fitsum G; Manko, Emilia; Phelan, Jody E; Higgins, Matthew; Osborne, Ashley; Kristan, Mojca; Walker, Thomas; Bousema, Teun; Messenger, Louisa A; Clark, Taane G; Campino, Susana

A novel Ancestral Beijing sublineage of Mycobacterium tuberculosis suggests the transition site to Modern Beijing sublineages. (2019) Ajawatanawong, Pravech; Yanai, Hideki; Smittipat, Nat; Disratthakit, Areeya; Yamada, Norio; Miyahara, Reiko; Nedsuwan, Supalert; Imasanguan, Worarat; Kantipong, Pacharee; Chaiyasirinroje, Boonchai; Wongyai, Jiraporn; Plitphonganphim, Supada; Tantivitayakul, Pornpen; Phelan, Jody; Parkhill, Julian; Clark, Taane G; Hibberd, Martin L; Ruangchai, Wuthiwat; Palittapongarnpim, Panawun; Juthayothin, Tada; Thawornwattana, Yuttapong; Viratyosin, Wasna; Tongsima, Sissades; Mahasirimongkol, Surakameth; Tokunaga, Katsushi; Palittapongarnpim, Prasit

Whole genome sequencing based characterization of extensively drug-resistant Mycobacterium tuberculosis isolates from Pakistan. (2015) Ali, Asho; Hasan, Zahra; McNerney, Ruth; Mallard, Kim; Hill-Cawthorne, Grant; Coll, Francesc; Nair, Mridul; Pain, Arnab; Clark, Taane G; Hasan, Rumina

SnoopCGH: software for visualizing comparative genomic hybridization data. (2009) Almagro-Garcia, Jacob; Manske, Magnus; Carret, Celine; Campino, Susana; Auburn, Sarah; Macinnis, Bronwyn L; Maslen, Gareth; Pain, Arnab; Newbold, Christopher I; Kwiatkowski, Dominic P; Clark, Taane G

Cathepsin-L can resist lysis by human serum in Trypanosoma brucei brucei. (2014) Alsford, Sam; Currier, Rachel B; Guerra-Assunção, José Afonso; Clark, Taane G; Horn, David

Primary macrophages and J774 cells respond differently to infection with Mycobacterium tuberculosis. (2017) Andreu, Nuria; Phelan, Jody; de Sessions, Paola F; Cliff, Jacqueline M; Clark, Taane G; Hibberd, Martin L

Genome-scale comparison of expanded gene families in Plasmodium ovale wallikeri and Plasmodium ovale curtisi with Plasmodium malariae and with other Plasmodium species. (2016) Ansari, Hifzur Rahman; Templeton, Thomas J; Subudhi, Amit Kumar; Ramaprasad, Abhinay; Tang, Jianxia; Lu, Feng; Naeem, Raeece; Hashish, Yasmeen; Oguike, Mary C; Benavente, Ernest Diez; Clark, Taane G; Sutherland, Colin J; Barnwell, John W; Culleton, Richard; Cao, Jun; Pain, Arnab

estMOI: estimating multiplicity of infection using parasite deep sequencing data. (2014) Assefa, Samuel A; Preston, Mark D; Campino, Susana; Ocholla, Harold; Sutherland, Colin J; Clark, Taane G

Population genomic structure and adaptation in the zoonotic malaria parasite Plasmodium knowlesi. (2015) Assefa, Samuel; Lim, Caeul; Preston, Mark D; Duffy, Craig W; Nair, Mridul B; Adroub, Sabir A; Kadir, Khamisah A; Goldberg, Jonathan M; Neafsey, Daniel E; Divis, Paul; Clark, Taane G; Duraisingh, Manoj T; Conway, David J; Pain, Arnab; Singh, Balbir

External validation of a deep learning electrocardiogram algorithm to detect ventricular dysfunction. (2021) Attia, Itzhak Zachi; Tseng, Andrew S; Benavente, Ernest Diez; Medina-Inojosa, Jose R; Clark, Taane G; Malyutina, Sofia; Kapa, Suraj; Schirmer, Henrik; Kudryavtsev, Alexander V; Noseworthy, Peter A; Carter, Rickey E; Ryabikov, Andrew; Perel, Pablo; Friedman, Paul A; Leon, David A; Lopez-Jimenez, Francisco

Genomic analysis of a pre-elimination Malaysian Plasmodium vivax population reveals selective pressures and changing transmission dynamics. (2018) Auburn, Sarah; Benavente, Ernest D; Miotto, Olivo; Pearson, Richard D; Amato, Roberto; Grigg, Matthew J; Barber, Bridget E; William, Timothy; Handayuni, Irene; Marfurt, Jutta; Trimarsanto, Hidayat; Noviyanti, Rintis; Sriprawat, Kanlaya; Nosten, Francois; Campino, Susana; Clark, Taane G; Anstey, Nicholas M; Kwiatkowski, Dominic P; Price, Ric N

An effective method to purify Plasmodium falciparum DNA directly from clinical blood samples for whole genome high-throughput sequencing. (2011) Auburn, Sarah; Campino, Susana; Clark, Taane G; Djimde, Abdoulaye A; Zongo, Issaka; Pinches, Robert; Manske, Magnus; Mangano, Valentina; Alcock, Daniel; Anastasi, Elisa; Maslen, Gareth; Macinnis, Bronwyn; Rockett, Kirk; Modiano, David; Newbold, Christopher I; Doumbo, Ogobara K; Ouédraogo, Jean Bosco; Kwiatkowski, Dominic P

Characterization of within-host Plasmodium falciparum diversity using next-generation sequence data. (2012) Auburn, Sarah; Campino, Susana; Miotto, Olivo; Djimde, Abdoulaye A; Zongo, Issaka; Manske, Magnus; Maslen, Gareth; Mangano, Valentina; Alcock, Daniel; MacInnis, Bronwyn; Rockett, Kirk A; Clark, Taane G; Doumbo, Ogobara K; Ouédraogo, Jean Bosco; Kwiatkowski, Dominic P

Further evidence supporting a role for gs signal transduction in severe malaria pathogenesis. (2010) Auburn, Sarah; Fry, Andrew E; Clark, Taane G; Campino, Susana; Diakite, Mahamadou; Green, Angela; Richardson, Anna; Jallow, Muminatou; Sisay-Joof, Fatou; Pinder, Margaret; Molyneux, Malcolm E; Taylor, Terrie E; Haldar, Kasturi; Rockett, Kirk A; Kwiatkowski, Dominic P

Effective preparation of Plasmodium vivax field isolates for high-throughput whole genome sequencing. (2013) Auburn, Sarah; Marfurt, Jutta; Maslen, Gareth; Campino, Susana; Ruano Rubio, Valentin; Manske, Magnus; Machunter, Barbara; Kenangalem, Enny; Noviyanti, Rintis; Trianty, Leily; Sebayang, Boni; Wirjanata, Grennady; Sriprawat, Kanlaya; Alcock, Daniel; Macinnis, Bronwyn; Miotto, Olivo; Clark, Taane G; Russell, Bruce; Anstey, Nicholas M; Nosten, François; Kwiatkowski, Dominic P; Price, Ric N

Antibiotic Susceptibility Patterns and Virulence Profiles of Classical and Hypervirulent Klebsiella pneumoniae Strains Isolated from Clinical Samples in Khyber Pakhtunkhwa, Pakistan. (2025) Azra; Khan, Taj Ali; Ul Haq, Ihtisham; Hinthong, Woranich; Campino, Susana; Gohar, Aisha; Khan, Noman; Kashif, Muhammad; Ullah, Ihsan; Clark, Taane G

Imputation-based meta-analysis of severe malaria in three African populations. (2013) Band, Gavin; Le, Quang Si; Jostins, Luke; Pirinen, Matti; Kivinen, Katja; Jallow, Muminatou; Sisay-Joof, Fatoumatta; Bojang, Kalifa; Pinder, Margaret; Sirugo, Giorgio; Conway, David J; Nyirongo, Vysaul; Kachala, David; Molyneux, Malcolm; Taylor, Terrie; Ndila, Carolyne; Peshu, Norbert; Marsh, Kevin; Williams, Thomas N; Alcock, Daniel; Andrews, Robert; Edkins, Sarah; Gray, Emma; Hubbart, Christina; Jeffreys, Anna; Rowlands, Kate; Schuldt, Kathrin; Clark, Taane G; Small, Kerrin S; Teo, Yik Ying; Kwiatkowski, Dominic P; Rockett, Kirk A; Barrett, Jeffrey C; Spencer, Chris CA; Malaria Genomic Epidemiology Network

PhyTB: Phylogenetic tree visualisation and sample positioning for M. tuberculosis. (2015) Benavente, Ernest D; Coll, Francesc; Furnham, Nick; McNerney, Ruth; Glynn, Judith R; Campino, Susana; Pain, Arnab; Mohareb, Fady R; Clark, Taane G

Whole genome sequencing of amplified Plasmodium knowlesi DNA from unprocessed blood reveals genetic exchange events between Malaysian Peninsular and Borneo subpopulations. (2019) Benavente, Ernest Diez; Gomes, Ana Rita; De Silva, Jeremy Ryan; Grigg, Matthew; Walker, Harriet; Barber, Bridget E; William, Timothy; Yeo, Tsin Wen; de Sessions, Paola Florez; Ramaprasad, Abhinay; Ibrahim, Amy; Charleston, James; Hibberd, Martin L; Pain, Arnab; Moon, Robert W; Auburn, Sarah; Ling, Lau Yee; Anstey, Nicholas M; Clark, Taane G; Campino, Susana

Distinctive genetic structure and selection patterns in Plasmodium vivax from South Asia and East Africa. (2021) Benavente, Ernest Diez; Manko, Emilia; Phelan, Jody; Campos, Monica; Nolder, Debbie; Fernandez, Diana; Velez-Tobon, Gabriel; Castaño, Alberto Tobón; Dombrowski, Jamille G; Marinho, Claudio RF; Aguiar, Anna Caroline C; Pereira, Dhelio Batista; Sriprawat, Kanlaya; Nosten, Francois; Moon, Robert; Sutherland, Colin J; Campino, Susana; Clark, Taane G

Global genetic diversity of var2csa in Plasmodium falciparum with implications for malaria in pregnancy and vaccine development. (2018) Benavente, Ernest Diez; Oresegun, Damilola R; de Sessions, Paola Florez; Walker, Eloise M; Roper, Cally; Dombrowski, Jamille G; de Souza, Rodrigo M; Marinho, Claudio RF; Sutherland, Colin J; Hibberd, Martin L; Mohareb, Fady; Baker, David A; Clark, Taane G; Campino, Susana

A reference genome and methylome for the Plasmodium knowlesi A1-H.1 line. (2017) Benavente, Ernest Diez; de Sessions, Paola Florez; Moon, Robert W; Grainger, Munira; Holder, Anthony A; Blackman, Michael J; Roper, Cally; Drakeley, Christopher J; Pain, Arnab; Sutherland, Colin J; Hibberd, Martin L; Campino, Susana; Clark, Taane G

A proportion of mutations fixed in the genomes of in vitro selected isogenic drug-resistant Mycobacterium tuberculosis mutants can be detected as minority variants in the parent culture. (2014) Bergval, Indra; Coll, Francesc; Schuitema, Anja; de Ronde, Hans; Mallard, Kim; Pain, Arnab; McNerney, Ruth; Clark, Taane G; Anthony, Richard M

Feature weighted models to address lineage dependency in drug-resistance prediction from Mycobacterium tuberculosis genome sequences. (2023) Billows, Nina; Phelan, Jody E; Xia, Dong; Peng, Yonghong; Clark, Taane G; Chang, Yu-Mei

Large-scale statistical analysis of Mycobacterium tuberculosis genome sequences identifies compensatory mutations associated with multi-drug resistance. (2024) Billows, Nina; Phelan, Jody; Xia, Dong; Peng, Yonghong; Clark, Taane G; Chang, Yu-Mei

Genome-wide screen identifies new candidate genes associated with artemisinin susceptibility in Plasmodium falciparum in Kenya. (2013) Borrmann, Steffen; Straimer, Judith; Mwai, Leah; Abdi, Abdirahman; Rippert, Anja; Okombo, John; Muriithi, Steven; Sasi, Philip; Kortok, Moses Mosobo; Lowe, Brett; Campino, Susana; Assefa, Samuel; Auburn, Sarah; Manske, Magnus; Maslen, Gareth; Peshu, Norbert; Kwiatkowski, Dominic P; Marsh, Kevin; Nzila, Alexis; Clark, Taane G

Survival analysis part II: multivariate data analysis--an introduction to concepts and methods. (2003) Bradburn, MJ; Clark, TG; Love, SB; Altman, DG

Survival analysis Part III: multivariate data analysis -- choosing a model and assessing its adequacy and fit. (2003) Bradburn, MJ; Clark, TG; Love, SB; Altman, DG

Global expansion of Mycobacterium tuberculosis lineage 4 shaped by colonial migration and local adaptation. (2018) Brynildsrud, Ola B; Pepperell, Caitlin S; Suffys, Philip; Grandjean, Louis; Monteserin, Johana; Debech, Nadia; Bohlin, Jon; Alfsnes, Kristian; Pettersson, John O-H; Kirkeleite, Ingerid; Fandinho, Fatima; da Silva, Marcia Aparecida; Perdigao, Joao; Portugal, Isabel; Viveiros, Miguel; Clark, Taane; Caws, Maxine; Dunstan, Sarah; Thai, Phan Vuong Khac; Lopez, Beatriz; Ritacco, Viviana; Kitchen, Andrew; Brown, Tyler S; van Soolingen, Dick; O'Neill, Mary B; Holt, Kathryn E; Feil, Edward J; Mathema, Barun; Balloux, Francois; Eldholm, Vegard

Genomic Epidemiology of a Protracted Hospital Outbreak Caused by a Toxin A-Negative Clostridium difficile Sublineage PCR Ribotype 017 Strain in London, England. (2015) Cairns, MD; Preston, MD; Lawley, TD; Clark, TG; Stabler, RA; Wren, BW

Population genetic analysis of Plasmodium falciparum parasites using a customized Illumina GoldenGate genotyping assay. (2011) Campino, Susana; Auburn, Sarah; Kivinen, Katja; Zongo, Issaka; Ouedraogo, Jean-Bosco; Mangano, Valentina; Djimde, Abdoulaye; Doumbo, Ogobara K; Kiara, Steven M; Nzila, Alexis; Borrmann, Steffen; Marsh, Kevin; Michon, Pascal; Mueller, Ivo; Siba, Peter; Jiang, Hongying; Su, Xin-Zhuan; Amaratunga, Chanaki; Socheat, Duong; Fairhurst, Rick M; Imwong, Mallika; Anderson, Timothy; Nosten, François; White, Nicholas J; Gwilliam, Rhian; Deloukas, Panos; MacInnis, Bronwyn; Newbold, Christopher I; Rockett, Kirk; Clark, Taane G; Kwiatkowski, Dominic P

Genomic variation in two gametocyte non-producing Plasmodium falciparum clonal lines. (2016) Campino, Susana; Benavente, Ernest Diez; Assefa, Samuel; Thompson, Eloise; Drought, Laura G; Taylor, Catherine J; Gorvett, Zaria; Carret, Celine K; Flueck, Christian; Ivens, Al C; Kwiatkowski, Dominic P; Alano, Pietro; Baker, David A; Clark, Taane G

TLR9 polymorphisms in African populations: no association with severe malaria, but evidence of cis-variants acting on gene expression. (2009) Campino, Susana; Forton, Julian; Auburn, Sarah; Fry, Andrew; Diakite, Mahamadou; Richardson, Anna; Hull, Jeremy; Jallow, Muminatou; Sisay-Joof, Fatou; Pinder, Margaret; Molyneux, Malcolm E; Taylor, Terrie E; Rockett, Kirk; Clark, Taane G; Kwiatkowski, Dominic P

Validating discovered Cis-acting regulatory genetic variants: application of an allele specific expression approach to HapMap populations. (2008) Campino, Susana; Forton, Julian; Raj, Srilakshmi; Mohr, Bert; Auburn, Sarah; Fry, Andrew; Mangano, Valentina D; Vandiedonck, Claire; Richardson, Anna; Rockett, Kirk; Clark, Taane G; Kwiatkowski, Dominic P

A forward genetic screen reveals a primary role for Plasmodium falciparum Reticulocyte Binding Protein Homologue 2a and 2b in determining alternative erythrocyte invasion pathways. (2018) Campino, Susana; Marin-Menendez, Alejandro; Kemp, Alison; Cross, Nadia; Drought, Laura; Otto, Thomas D; Benavente, Ernest Diez; Ravenhall, Matt; Schwach, Frank; Girling, Gareth; Manske, Magnus; Theron, Michel; Gould, Kelda; Drury, Eleanor; Clark, Taane G; Kwiatkowski, Dominic P; Pance, Alena; Rayner, Julian C

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. (2018) Campos, Monica C; Dombrowski, Jamille G; Phelan, Jody; Marinho, Claudio RF; Hibberd, Martin; Clark, Taane G; Campino, Susana

High-throughput barcoding method for the genetic surveillance of insecticide resistance and species identification in Anopheles gambiae complex malaria vectors. (2022) Campos, Monica; Phelan, Jody; Spadar, Anton; Collins, Emma; Gonçalves, Adéritow; Pelloquin, Bethanie; Vaselli, Natasha Marcella; Meiwald, Anne; Clark, Emma; Stica, Caleb; Orsborne, James; Sylla, Moussa; Edi, Constant; Camara, Denka; Mohammed, Abdul Rahim; Afrane, Yaw Asare; Kristan, Mojca; Walker, Thomas; Gomez, Lara Ferrero; Messenger, Louisa A; Clark, Taane G; Campino, Susana

Surveillance of Aedes aegypti populations in the city of Praia, Cape Verde: Zika virus infection, insecticide resistance and genetic diversity. (2020) Campos, Monica; Ward, Daniel; Morales, Raika Francesca; Gomes, Ana Rita; Silva, Keily; Sepúlveda, Nuno; Gomez, Lara Ferrero; Clark, Taane G; Campino, Susana

Genome-wide mutagenesis and multi-drug resistance in American trypanosomes induced by the front-line drug benznidazole. (2017) Campos, Mônica C; Phelan, Jody; Francisco, Amanda F; Taylor, Martin C; Lewis, Michael D; Pain, Arnab; Clark, Taane G; Kelly, John M

Survival analysis part I: basic concepts and first analyses. (2003) Clark, TG; Bradburn, MJ; Love, SB; Altman, DG

Survival analysis part IV: further concepts and methods in survival analysis. (2003) Clark, TG; Bradburn, MJ; Love, SB; Altman, DG

A prognostic model for ovarian cancer. (2001) Clark, TG; Stewart, ME; Altman, DG; Gabra, H; Smyth, JF

Functional constraint and small insertions and deletions in the ENCODE regions of the human genome. (2007) Clark, Taane G; Andrew, Toby; Cooper, Gregory M; Margulies, Elliott H; Mullikin, James C; Balding, David J

Elucidating emergence and transmission of multidrug-resistant tuberculosis in treatment experienced patients by whole genome sequencing. (2013) Clark, Taane G; Mallard, Kim; Coll, Francesc; Preston, Mark; Assefa, Samuel; Harris, David; Ogwang, Sam; Mumbowa, Francis; Kirenga, Bruce; O'Sullivan, Denise M; Okwera, Alphonse; Eisenach, Kathleen D; Joloba, Moses; Bentley, Stephen D; Ellner, Jerrold J; Parkhill, Julian; Jones-López, Edward C; McNerney, Ruth

Characterisation of the opposing effects of G6PD deficiency on cerebral malaria and severe malarial anaemia. (2016) Clarke, Geraldine M; Rockett, Kirk; Kivinen, Katja; Hubbart, Christina; Jeffreys, Anna E; Rowlands, Kate; Jallow, Muminatou; Conway, David J; Bojang, Kalifa A; Pinder, Margaret; Usen, Stanley; Sisay-Joof, Fatoumatta; Sirugo, Giorgio; Toure, Ousmane; Thera, Mahamadou A; Konate, Salimata; Sissoko, Sibiry; Niangaly, Amadou; Poudiougou, Belco; Mangano, Valentina D; Bougouma, Edith C; Sirima, Sodiomon B; Modiano, David; Amenga-Etego, Lucas N; Ghansah, Anita; Koram, Kwadwo A; Wilson, Michael D; Enimil, Anthony; Evans, Jennifer; Amodu, Olukemi K; Olaniyan, Subulade; Apinjoh, Tobias; Mugri, Regina; Ndi, Andre; Ndila, Carolyne M; Uyoga, Sophie; Macharia, Alexander; Peshu, Norbert; Williams, Thomas N; Manjurano, Alphaxard; Sepúlveda, Nuno; Clark, Taane G; Riley, Eleanor; Drakeley, Chris; Reyburn, Hugh; Nyirongo, Vysaul; Kachala, David; Molyneux, Malcolm; Dunstan, Sarah J; Phu, Nguyen Hoan; Quyen, Nguyen Ngoc; Thai, Cao Quang; Hien, Tran Tinh; Manning, Laurens; Laman, Moses; Siba, Peter; Karunajeewa, Harin; Allen, Steve; Allen, Angela; Davis, Timothy Me; Michon, Pascal; Mueller, Ivo; Molloy, Síle F; Campino, Susana; Kerasidou, Angeliki; Cornelius, Victoria J; Hart, Lee; Shah, Shivang S; Band, Gavin; Spencer, Chris Ca; Agbenyega, Tsiri; Achidi, Eric; Doumbo, Ogobara K; Farrar, Jeremy; Marsh, Kevin; Taylor, Terrie; Kwiatkowski, Dominic P; MalariaGEN Consortium

Genetic signatures of Mycobacterium tuberculosis Nonthaburi genotype revealed by whole genome analysis of isolates from tuberculous meningitis patients in Thailand. (2016) Coker, Olabisi Oluwabukola; Chaiprasert, Angkana; Ngamphiw, Chumpol; Tongsima, Sissades; Regmi, Sanjib Mani; Clark, Taane G; Ong, Rick Twee Hee; Teo, Yik-Ying; Prammananan, Therdsak; Palittapongarnpim, Prasit

Bioinformatic analysis of Mycobacterium tuberculosis whole genome data. (2015) Coll I Cerezo, F

PowerBacGWAS: a computational pipeline to perform power calculations for bacterial genome-wide association studies. (2022) Coll, Francesc; Gouliouris, Theodore; Bruchmann, Sebastian; Phelan, Jody; Raven, Kathy E; Clark, Taane G; Parkhill, Julian; Peacock, Sharon J

SpolPred: rapid and accurate prediction of Mycobacterium tuberculosis spoligotypes from short genomic sequences. (2012) Coll, Francesc; Mallard, Kim; Preston, Mark D; Bentley, Stephen; Parkhill, Julian; McNerney, Ruth; Martin, Nigel; Clark, Taane G

A robust SNP barcode for typing Mycobacterium tuberculosis complex strains. (2014) Coll, Francesc; McNerney, Ruth; Guerra-Assunção, José Afonso; Glynn, Judith R; Perdigão, João; Viveiros, Miguel; Portugal, Isabel; Pain, Arnab; Martin, Nigel; Clark, Taane G

Rapid determination of anti-tuberculosis drug resistance from whole-genome sequences. (2015) Coll, Francesc; McNerney, Ruth; Preston, Mark D; Guerra-Assunção, José Afonso; Warry, Andrew; Hill-Cawthorne, Grant; Mallard, Kim; Nair, Mridul; Miranda, Anabela; Alves, Adriana; Perdigão, João; Viveiros, Miguel; Portugal, Isabel; Hasan, Zahra; Hasan, Rumina; Glynn, Judith R; Martin, Nigel; Pain, Arnab; Clark, Taane G

Genome-wide analysis of multi- and extensively drug-resistant Mycobacterium tuberculosis. (2017) Coll, Francesc; Phelan, Jody; Hill-Cawthorne, Grant A; Nair, Mridul B; Mallard, Kim; Ali, Shahjahan; Abdallah, Abdallah M; Alghamdi, Saad; Alsomali, Mona; Ahmed, Abdallah O; Portelli, Stephanie; Oppong, Yaa; Alves, Adriana; Bessa, Theolis Barbosa; Campino, Susana; Caws, Maxine; Chatterjee, Anirvan; Crampin, Amelia C; Dheda, Keertan; Furnham, Nicholas; Glynn, Judith R; Grandjean, Louis; Minh Ha, Dang; Hasan, Rumina; Hasan, Zahra; Hibberd, Martin L; Joloba, Moses; Jones-López, Edward C; Matsumoto, Tomoshige; Miranda, Anabela; Moore, David J; Mocillo, Nora; Panaiotov, Stefan; Parkhill, Julian; Penha, Carlos; Perdigão, João; Portugal, Isabel; Rchiad, Zineb; Robledo, Jaime; Sheen, Patricia; Shesha, Nashwa Talaat; Sirgel, Frik A; Sola, Christophe; Oliveira Sousa, Erivelton; Streicher, Elizabeth M; Helden, Paul Van; Viveiros, Miguel; Warren, Robert M; McNerney, Ruth; Pain, Arnab; Clark, Taane G

PolyTB: a genomic variation map for Mycobacterium tuberculosis. (2014) Coll, Francesc; Preston, Mark; Guerra-Assunção, José Afonso; Hill-Cawthorn, Grant; Harris, David; Perdigão, João; Viveiros, Miguel; Portugal, Isabel; Drobniewski, Francis; Gagneux, Sebastien; Glynn, Judith R; Pain, Arnab; Parkhill, Julian; McNerney, Ruth; Martin, Nigel; Clark, Taane G

Utilising genomic approaches to explore genetic diversity and insecticide resistance in Aedes aegypti populations. (2025) Collins, EL

A next generation targeted amplicon sequencing method to screen for insecticide resistance mutations in Aedes aegypti populations reveals a rdl mutation in mosquitoes from Cabo Verde. (2022) Collins, Emma L; Phelan, Jody E; Hubner, Magdalena; Spadar, Anton; Campos, Monica; Ward, Daniel; Acford-Palmer, Holly; Gomes, Ana Rita; Silva, Keily; Ferrero Gomez, Lara; Clark, Taane G; Campino, Susana

Know Your Heart: Rationale, design and conduct of a cross-sectional study of cardiovascular structure, function and risk factors in 4500 men and women aged 35-69 years from two Russian cities, 2015-18. (2018) Cook, Sarah; Malyutina, Sofia; Kudryavtsev, Alexander V; Averina, Maria; Bobrova, Natalia; Boytsov, Sergey; Brage, Soren; Clark, Taane G; Diez Benavente, Ernest; Eggen, Anne Elise; Hopstock, Laila A; Hughes, Alun; Johansen, Heidi; Kholmatova, Kamila; Kichigina, Anastasiya; Kontsevaya, Anna; Kornev, Michael; Leong, Darryl; Magnus, Per; Mathiesen, Ellisiv; McKee, Martin; Morgan, Katy; Nilssen, Odd; Plakhov, Ilya; Quint, Jennifer K; Rapala, Alicja; Ryabikov, Andrey; Saburova, Lyudmila; Schirmer, Henrik; Shapkina, Marina; Shiekh, Suhail; Shkolnikov, Vladimir M; Stylidis, Michael; Voevoda, Michael; Westgate, Kate; Leon, David A

Know Your Heart: Rationale, design and conduct of a cross-sectional study of cardiovascular structure, function and risk factors in 4500 men and women aged 35-69 years from two Russian cities, 2015-18. (2018) Cook, Sarah; Malyutina, Sofia; Kudryavtsev, Alexander V; Averina, Maria; Bobrova, Natalia; Boytsov, Sergey; Brage, Soren; Clark, Taane G; Diez Benavente, Ernest; Eggen, Anne Elise; Hopstock, Laila A; Hughes, Alun; Johansen, Heidi; Kholmatova, Kamila; Kichigina, Anastasiya; Kontsevaya, Anna; Kornev, Michael; Leong, Darryl; Magnus, Per; Mathiesen, Ellisiv; McKee, Martin; Morgan, Katy; Nilssen, Odd; Plakhov, Ilya; Quint, Jennifer K; Rapala, Alicja; Ryabikov, Andrey; Saburova, Lyudmila; Schirmer, Henrik; Shapkina, Marina; Shiekh, Suhail; Shkolnikov, Vladimir M; Stylidis, Michael; Voevoda, Michael; Westgate, Kate; Leon, David A

Know Your Heart: Rationale, design and conduct of a cross-sectional study of cardiovascular structure, function and risk factors in 4500 men and women aged 35-69 years from two Russian cities, 2015-18. (2018) Cook, Sarah; Malyutina, Sofia; Kudryavtsev, Alexander; Averina, Maria; Bobrova, Natalia; Boytsov, Sergey; Brage, Soren; Clark, Taane; Diez Benavente, Ernest; Eggen, Anne Elise; Hopstock, Laila; Hughes, Alun; Johansen, Heidi; Kholmatova, Kamila; Kichigina, Anastasiya; Kontsevaya, Anna; Kornev, Michael; Leong, Darryl; Magnus, Per; Mathiesen, Ellisiv; McKee, Martin; Morgan, Katy; Nilssen, Odd; Plakhov, Ilya; Quint, Jennifer; Rapala, Alicja; Ryabikov, Andrey; Saburova, Lyudmila; Schirmer, Henrik; Shapkina, Marina; Shiekh, Suhail; Shkolnikov, Vladimir; Stylidis, Michael; Voevoda, Michael; Westgate, Kate; Leon, David

Know Your Heart: Rationale, design and conduct of a cross-sectional study of cardiovascular structure, function and risk factors in 4500 men and women aged 35-69 years from two Russian cities, 2015-18. (2018) Cook, Sarah; Malyutina, Sofia; Kudryavtsev, Alexander; Averina, Maria; Bobrova, Natalia; Boytsov, Sergey; Brage, Soren; Clark, Taane; Diez Benavente, Ernest; Eggen, Anne Elise; Hopstock, Laila; Hughes, Alun; Johansen, Heidi; Kholmatova, Kamila; Kichigina, Anastasiya; Kontsevaya, Anna; Kornev, Michael; Leong, Darryl; Magnus, Per; Mathiesen, Ellisiv; McKee, Martin; Morgan, Katy; Nilssen, Odd; Plakhov, Ilya; Quint, Jennifer; Rapala, Alicja; Ryabikov, Andrey; Saburova, Lyudmila; Schirmer, Henrik; Shapkina, Marina; Shiekh, Suhail; Shkolnikov, Vladimir; Stylidis, Michael; Voevoda, Michael; Westgate, Kate; Leon, David

Genetic Diversity of norA, Coding for a Main Efflux Pump of Staphylococcus aureus. (2019) Costa, Sofia Santos; Sobkowiak, Benjamin; Parreira, Ricardo; Edgeworth, Jonathan D; Viveiros, Miguel; Clark, Taane G; Couto, Isabel

Drug resistance profile and clonality of Plasmodium falciparum parasites in Cape Verde: the 2017 malaria outbreak. (2021) Da Veiga Leal, Silvania; Ward, Daniel; Campino, Susana; Benavente, Ernest Diez; Ibrahim, Amy; Claret, Tânia; Isaías, Varela; Monteiro, Davidson; Clark, Taane G; Gonçalves, Luzia; Valdez, Tomas; da Luz Lima Mendonça, Maria; Silveira, Henrique; Nogueira, Fatima

High-throughput analysis of candidate imprinted genes and allele-specific gene expression in the human term placenta. (2010) Daelemans, Caroline; Ritchie, Matthew E; Smits, Guillaume; Abu-Amero, Sayeda; Sudbery, Ian M; Forrest, Matthew S; Campino, Susana; Clark, Taane G; Stanier, Philip; Kwiatkowski, Dominic; Deloukas, Panos; Dermitzakis, Emmanouil T; Tavaré, Simon; Moore, Gudrun E; Dunham, Ian

Machine learning methods for infectious diseases: Applications for Tuberculosis and Malaria. (2022) Deelder, WA

Using deep learning to identify recent positive selection in malaria parasite sequence data. (2021) Deelder, Wouter; Benavente, Ernest Diez; Phelan, Jody; Manko, Emilia; Campino, Susana; Palla, Luigi; Clark, Taane G

Machine Learning Predicts Accurately Mycobacterium tuberculosis Drug Resistance From Whole Genome Sequencing Data. (2019) Deelder, Wouter; Christakoudi, Sofia; Phelan, Jody; Benavente, Ernest Diez; Campino, Susana; McNerney, Ruth; Palla, Luigi; Clark, Taane G

Geographical classification of malaria parasites through applying machine learning to whole genome sequence data. (2022) Deelder, Wouter; Manko, Emilia; Phelan, Jody E; Campino, Susana; Palla, Luigi; Clark, Taane G

A modified decision tree approach to improve the prediction and mutation discovery for drug resistance in Mycobacterium tuberculosis. (2022) Deelder, Wouter; Napier, Gary; Campino, Susana; Palla, Luigi; Phelan, Jody; Clark, Taane G

A comprehensive analysis of drug resistance molecular markers and Plasmodium falciparum genetic diversity in two malaria endemic sites in Mali. (2019) Diakité, Seidina AS; Traoré, Karim; Sanogo, Ibrahim; Clark, Taane G; Campino, Susana; Sangaré, Modibo; Dabitao, Djeneba; Dara, Antoine; Konaté, Drissa S; Doucouré, Fousseyni; Cissé, Amadou; Keita, Bourama; Doumbouya, Mory; Guindo, Merepen A; Toure, Mahamoudou B; Sogoba, Nafomon; Doumbia, Seydou; Awandare, Gordon A; Diakité, Mahamadou

A molecular barcode to inform the geographical origin and transmission dynamics of Plasmodium vivax malaria. (2020) Diez Benavente, Ernest; Campos, Monica; Phelan, Jody; Nolder, Debbie; Dombrowski, Jamille G; Marinho, Claudio RF; Sriprawat, Kanlaya; Taylor, Aimee R; Watson, James; Roper, Cally; Nosten, Francois; Sutherland, Colin J; Campino, Susana; Clark, Taane G

Analysis of nuclear and organellar genomes of Plasmodium knowlesi in humans reveals ancient population structure and recent recombination among host-specific subpopulations. (2017) Diez Benavente, Ernest; Florez de Sessions, Paola; Moon, Robert W; Holder, Anthony A; Blackman, Michael J; Roper, Cally; Drakeley, Christopher J; Pain, Arnab; Sutherland, Colin J; Hibberd, Martin L; Campino, Susana; Clark, Taane G

Studying accelerated cardiovascular ageing in Russian adults through a novel deep-learning ECG biomarker. (2021) Diez Benavente, Ernest; Jimenez-Lopez, Francisco; Attia, Zachi I; Malyutina, Sofia; Kudryavtsev, Alexander; Ryabikov, Andrew; Friedman, Paul A; Kapa, Suraj; Voevoda, Michael; Perel, Pablo; Schirmer, Henrik; Hughes, Alun D; Clark, Taane G; Leon, David A

Genomic variation in Plasmodium vivax malaria reveals regions under selective pressure. (2017) Diez Benavente, Ernest; Ward, Zoe; Chan, Wilson; Mohareb, Fady R; Sutherland, Colin J; Roper, Cally; Campino, Susana; Clark, Taane G

G6PD deficiency alleles in a malaria-endemic region in the Western Brazilian Amazon. (2017) Dombrowski, Jamille G; Souza, Rodrigo M; Curry, Jonathan; Hinton, Laura; Silva, Natercia RM; Grignard, Lynn; Gonçalves, Ligia A; Gomes, Ana Rita; Epiphanio, Sabrina; Drakeley, Chris; Huggett, Jim; Clark, Taane G; Campino, Susana; Marinho, Claudio RF

Genetic diversity of Plasmodium vivax isolates from pregnant women in the Western Brazilian Amazon: a prospective cohort study. (2023) Dombrowski, Jamille Gregório; Acford-Palmer, Holly; Campos, Monica; Separovic, Erika Paula Machado; Epiphanio, Sabrina; Clark, Taane Gregory; Campino, Susana; Marinho, Claudio Romero Farias

Adverse pregnancy outcomes are associated with Plasmodium vivax malaria in a prospective cohort of women from the Brazilian Amazon. (2021) Dombrowski, Jamille Gregório; Barateiro, André; Peixoto, Erika Paula Machado; Barros, André Boler Cláudio da Silva; Souza, Rodrigo Medeiros de; Clark, Taane Gregory; Campino, Susana; Wrenger, Carsten; Wunderlich, Gerhard; Palmisano, Giuseppe; Epiphanio, Sabrina; Gonçalves, Lígia Antunes; Marinho, Claudio Romero Farias

Association of Malaria Infection During Pregnancy With Head Circumference of Newborns in the Brazilian Amazon. (2019) Dombrowski, Jamille Gregório; Souza, Rodrigo Medeiros de; Lima, Flávia Afonso; Bandeira, Carla Letícia; Murillo, Oscar; Costa, Douglas de Sousa; Peixoto, Erika Paula Machado; Cunha, Marielton Dos Passos; Zanotto, Paolo Marinho de Andrade; Bevilacqua, Estela; Grisotto, Marcos Augusto Grigolin; Pedroso de Lima, Antonio Carlos; Singer, Julio da Motta; Campino, Susana; Clark, Taane Gregory; Epiphanio, Sabrina; Gonçalves, Lígia Antunes; Marinho, Cláudio Romero Farias

Development and Validation of a Nomogram for Assessing Survival in Patients With COVID-19 Pneumonia. (2020) Dong, Yi-Min; Sun, Jia; Li, Yi-Xin; Chen, Qian; Liu, Qing-Quan; Sun, Zhou; Pang, Ran; Chen, Fei; Xu, Bing-Yang; Manyande, Anne; Clark, Taane G; Li, Jin-Ping; Orhan, Ilkay Erdogan; Tian, Yu-Ke; Wang, Tao; Wu, Wei; Ye, Da-Wei

Discordant bioinformatic predictions of antimicrobial resistance from whole-genome sequencing data of bacterial isolates: an inter-laboratory study. (2020) Doyle, Ronan M; O'Sullivan, Denise M; Aller, Sean D; Bruchmann, Sebastian; Clark, Taane; Coello Pelegrin, Andreu; Cormican, Martin; Diez Benavente, Ernest; Ellington, Matthew J; McGrath, Elaine; Motro, Yair; Phuong Thuy Nguyen, Thi; Phelan, Jody; Shaw, Liam P; Stabler, Richard A; van Belkum, Alex; van Dorp, Lucy; Woodford, Neil; Moran-Gilad, Jacob; Huggett, Jim F; Harris, Kathryn A

Discordant bioinformatic predictions of antimicrobial resistance from whole-genome sequencing data of bacterial isolates: An inter-laboratory study. (2019) Doyle, Ronan M; O’Sullivan, Denise M; Aller, Sean D; Bruchmann, Sebastian; Clark, Taane; Pelegrin, Andreu Coello; Cormican, Martin; Benavente, Ernest Diez; Ellington, Matthew J; McGrath, Elaine; Motro, Yair; Thuy Nguyen, Thi Phuong; Phelan, Jody; Shaw, Liam P; Stabler, Richard A; van Belkum, Alex; van Dorp, Lucy; Woodford, Neil; Moran-Gilad, Jacob; Huggett, Jim F; Harris, Kathryn A

Framing the Drivers of Antimicrobial Resistance in Tanzania. (2021) Durrance-Bagale, Anna; Jung, Anne-Sophie; Frumence, Gasto; Mboera, Leonard; Mshana, Stephen E; Sindato, Calvin; Clark, Taane G; Matee, Mecky; Legido-Quigley, Helena

Using whole genome sequence data to study genomic diversity and develop molecular barcodes to profile Plasmodium malaria parasites. (2018) Díez Benavente, E

A computational method for predicting the most likely evolutionary trajectories in the stepwise accumulation of resistance mutations. (2023) Eccleston, Ruth Charlotte; Manko, Emilia; Campino, Susana; Clark, Taane G; Furnham, Nicholas

Policy actors and human and animal health practitioners' perceptions of antimicrobial use and resistance in Tanzania: A qualitative study. (2021) Frumence, Gasto; Mboera, Leonard EG; Katale, Bugwesa Z; Sindato, Calvin; Kimera, Sharadhuli; Durrance-Bagale, Anna; Mshana, Stephen E; Clark, Taane G; Rweyemamu, Mark M; Legido-Quigley, Helena; Matee, Mecky

Practices and Challenges of Veterinary Paraprofessionals in Regards to Antimicrobial Use and Resistance in Animals in Dar Es Salaam, Tanzania. (2021) Frumence, Gasto; Mboera, Leonard EG; Sindato, Calvin; Durrance-Bagale, Anna; Jung, Anne-Sophie; Mshana, Stephen E; Clark, Taane G; Legido-Quigley, Helena; Matee, Mecky I

The Governance and Implementation of the National Action Plan on Antimicrobial Resistance in Tanzania: A Qualitative Study. (2021) Frumence, Gasto; Mboera, Leonard EG; Sindato, Calvin; Katale, Bugwesa Z; Kimera, Sharadhuli; Metta, Emmy; Durrance-Bagale, Anna; Jung, Anne-Sophie; Mshana, Stephen E; Clark, Taane G; Rweyemamu, Mark; Legido-Quigley, Helena; Matee, Mecky IN

Positive selection of a CD36 nonsense variant in sub-Saharan Africa, but no association with severe malaria phenotypes. (2009) Fry, Andrew E; Ghansa, Anita; Small, Kerrin S; Palma, Alejandro; Auburn, Sarah; Diakite, Mahamadou; Green, Angela; Campino, Susana; Teo, Yik Y; Clark, Taane G; Jeffreys, Anna E; Wilson, Jonathan; Jallow, Muminatou; Sisay-Joof, Fatou; Pinder, Margaret; Griffiths, Michael J; Peshu, Norbert; Williams, Thomas N; Newton, Charles R; Marsh, Kevin; Molyneux, Malcolm E; Taylor, Terrie E; Koram, Kwadwo A; Oduro, Abraham R; Rogers, William O; Rockett, Kirk A; Sabeti, Pardis C; Kwiatkowski, Dominic P

Variation in Complexity of Infection and Transmission Stability between Neighbouring Populations of Plasmodium vivax in Southern Ethiopia. (2015) Getachew, Sisay; To, Sheren; Trimarsanto, Hidayat; Thriemer, Kamala; Clark, Taane G; Petros, Beyene; Aseffa, Abraham; Price, Ric N; Auburn, Sarah

Haplotype analyses of haemoglobin C and haemoglobin S and the dynamics of the evolutionary response to malaria in Kassena-Nankana District of Ghana. (2012) Ghansah, Anita; Rockett, Kirk A; Clark, Taane G; Wilson, Michael D; Koram, Kwadwo A; Oduro, Abraham R; Amenga-Etego, Lucas; Anyorigiya, Thomas; Hodgson, Abraham; Milligan, Paul; Rogers, William O; Kwiatkowski, Dominic P

Probing Differences in Gene Essentiality Between the Human and Animal Adapted Lineages of the Mycobacterium tuberculosis Complex Using TnSeq. (2021) Gibson, Amanda J; Passmore, Ian J; Faulkner, Valwynne; Xia, Dong; Nobeli, Irene; Stiens, Jennifer; Willcocks, Sam; Clark, Taane G; Sobkowiak, Ben; Werling, Dirk; Villarreal-Ramos, Bernardo; Wren, Brendan W; Kendall, Sharon L

Whole Genome Sequencing Shows a Low Proportion of Tuberculosis Disease Is Attributable to Known Close Contacts in Rural Malawi. (2015) Glynn, Judith R; Guerra-Assunção, José Afonso; Houben, Rein MGJ; Sichali, Lifted; Mzembe, Themba; Mwaungulu, Lorrain K; Mwaungulu, J Nimrod; McNerney, Ruth; Khan, Palwasha; Parkhill, Julian; Crampin, Amelia C; Clark, Taane G

Genetic diversity of next generation antimalarial targets: A baseline for drug resistance surveillance programmes. (2017) Gomes, Ana Rita; Ravenhall, Matt; Benavente, Ernest Diez; Talman, Arthur; Sutherland, Colin; Roper, Cally; Clark, Taane G; Campino, Susana

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]. (2017) Gomes, Ana Rita; Ravenhall, Matt; Benavente, Ernest Diez; Talman, Arthur; Sutherland, Colin; Roper, Cally; Clark, Taane G; Campino, Susana

Whole genome sequencing reveals large deletions and other loss of function mutations in Mycobacterium tuberculosis drug resistance genes. (2021) Gomes, Laura C; Campino, Susana; Marinho, Cláudio RF; Clark, Taane G; Phelan, Jody E

An integrated whole genome analysis of Mycobacterium tuberculosis reveals insights into relationship between its genome, transcriptome and methylome. (2019) Gomez-Gonzalez, Paula J; Andreu, Nuria; Phelan, Jody E; de Sessions, Paola Florez; Glynn, Judith R; Crampin, Amelia C; Campino, Susana; Butcher, Philip D; Hibberd, Martin L; Clark, Taane G

Bead-based assays to simultaneously detect multiple human inherited blood disorders associated with malaria. (2019) Grignard, Lynn; Mair, Catherine; Curry, Jonathan; Mahey, Laleta; Bastiaens, Guide JH; Tiono, Alfred B; Okebe, Joseph; Coulibaly, Sam A; Gonçalves, Bronner P; Affara, Muna; Ouédraogo, Alphonse; Bougouma, Edith C; Sanou, Guillaume S; Nébié, Issa; Lanke, Kjerstin HW; Sirima, Sodiomon B; d'Alessandro, Umberto; Clark, Taane G; Campino, Susana; Bousema, Teun; Drakeley, Chris

Large-scale whole genome sequencing of M. tuberculosis provides insights into transmission in a high prevalence area. (2015) Guerra-Assunção, JA; Crampin, AC; Houben, RMGJ; Mzembe, T; Mallard, K; Coll, F; Khan, P; Banda, L; Chiwaya, A; Pereira, RPA; McNerney, R; Fine, PEM; Parkhill, J; Clark, TG; Glynn, JR

Recurrence due to relapse or reinfection with Mycobacterium tuberculosis: a whole-genome sequencing approach in a large, population-based cohort with a high HIV infection prevalence and active follow-up. (2014) Guerra-Assunção, José Afonso; Houben, Rein MGJ; Crampin, Amelia C; Mzembe, Themba; Mallard, Kim; Coll, Francesc; Khan, Palwasha; Banda, Louis; Chiwaya, Arthur; Pereira, Rui PA; McNerney, Ruth; Harris, David; Parkhill, Julian; Clark, Taane G; Glynn, Judith R

Newly Identified Mycobacterium africanum Lineage 10, Central Africa. (2024) Guyeux, Christophe; Senelle, Gaetan; Le Meur, Adrien; Supply, Philip; Gaudin, Cyril; Phelan, Jody E; Clark, Taane G; Rigouts, Leen; de Jong, Bouke; Sola, Christophe; Refrégier, Guislaine

Analysis of Mycobacterium tuberculosis ‘omics data to inform on loci linked to drug resistance, pathogenicity and virulence. (2023) Gómez González, PJ

Portable sequencing of Mycobacterium tuberculosis for clinical and epidemiological applications. (2022) Gómez-González, Paula J; Campino, Susana; Phelan, Jody E; Clark, Taane G

Genetic diversity of candidate loci linked to Mycobacterium tuberculosis resistance to bedaquiline, delamanid and pretomanid. (2021) Gómez-González, Paula J; Perdigao, Joao; Gomes, Pedro; Puyen, Zully M; Santos-Lazaro, David; Napier, Gary; Hibberd, Martin L; Viveiros, Miguel; Portugal, Isabel; Campino, Susana; Phelan, Jody E; Clark, Taane G

Functional genetic variation in pe/ppe genes contributes to diversity in Mycobacterium tuberculosis lineages and potential interactions with the human host. (2023) Gómez-González, Paula Josefina; Grabowska, Anna D; Tientcheu, Leopold D; Tsolaki, Anthony G; Hibberd, Martin L; Campino, Susana; Phelan, Jody E; Clark, Taane G

Epidemiology of SARS-CoV-2 infection among staff and students in a cohort of English primary and secondary schools during 2020-2021. (2022) Hargreaves, James R; Langan, Sinéad M; Oswald, William E; Halliday, Katherine E; Sturgess, Joanna; Phelan, Jody; Nguipdop-Djomo, Patrick; Ford, Benjamin; Allen, Elizabeth; Sundaram, Neisha; Ireland, Georgina; Poh, John; Ijaz, Samreen; Diamond, Ian; Rourke, Emma; Dawe, Fiona; Judd, Alison; Warren-Gash, Charlotte; Clark, Taane G; Glynn, Judith R; Edmunds, W John; Bonell, Chris; Mangtani, Punam; Ladhani, Shamez N; COVID-19 Schools Infection Survey Study Group

Artemisinin resistance-associated markers in Plasmodium falciparum parasites from the China-Myanmar border: predicted structural stability of K13 propeller variants detected in a low-prevalence area. (2019) He, Yan; Campino, Susana; Diez Benavente, Ernest; Warhurst, David C; Beshir, Khalid B; Lubis, Inke; Gomes, Ana Rita; Feng, Jun; Jiazhi, Wang; Sun, Xiaodong; Huang, Fang; Tang, Lin-Hua; Sutherland, Colin J; Clark, Taane G

Directional selection at the pfmdr1, pfcrt, pfubp1, and pfap2mu loci of Plasmodium falciparum in Kenyan children treated with ACT. (2014) Henriques, Gisela; Hallett, Rachel L; Beshir, Khalid B; Gadalla, Nahla B; Johnson, Rachel E; Burrow, Rebekah; van Schalkwyk, Donelly A; Sawa, Patrick; Omar, Sabah A; Clark, Taane G; Bousema, Teun; Sutherland, Colin J

Developing an RPA-based Molecular Barcoding Tool for Plasmodium Malaria. (2023) Higgins, MCW

A Pan Plasmodium lateral flow recombinase polymerase amplification assay for monitoring malaria parasites in vectors and human populations. (2024) Higgins, Matthew; Kristan, Mojca; Collins, Emma L; Messenger, Louisa A; Dombrowski, Jamille G; Vanheer, Leen N; Nolder, Debbie; Drakeley, Christopher J; Stone, William; Mahamar, Almahamoudou; Bousema, Teun; Delves, Michael; Bandibabone, Janvier; N'Do, Sévérin; Bantuzeko, Chimanuka; Zawadi, Bertin; Walker, Thomas; Sutherland, Colin J; Marinho, Claudio RF; Cameron, Mary M; Clark, Taane G; Campino, Susana

PrimedRPA: primer design for recombinase polymerase amplification assays. (2018) Higgins, Matthew; Ravenhall, Matt; Ward, Daniel; Phelan, Jody; Ibrahim, Amy; Forrest, Matthew S; Clark, Taane G; Campino, Susana

Characterizing the Impact of Primer-Template Mismatches on Recombinase Polymerase Amplification. (2022) Higgins, Matthew; Stringer, Oliver W; Ward, Daniel; Andrews, Jennifer M; Forrest, Matthew S; Campino, Susana; Clark, Taane G

Recombinations in staphylococcal cassette chromosome mec elements compromise the molecular detection of methicillin resistance in Staphylococcus aureus. (2014) Hill-Cawthorne, Grant A; Hudson, Lyndsey O; El Ghany, Moataz Fouad Abd; Piepenburg, Olaf; Nair, Mridul; Dodgson, Andrew; Forrest, Matthew S; Clark, Taane G; Pain, Arnab

From genome to function: A genomic investigation into understudied populations of the malaria parasites Plasmodium malariae and P.vivax. (2023) Ibrahim, A

Selective whole genome amplification of Plasmodium malariae DNA from clinical samples reveals insights into population structure. (2020) Ibrahim, Amy; Diez Benavente, Ernest; Nolder, Debbie; Proux, Stephane; Higgins, Matthew; Muwanguzi, Julian; Gomez Gonzalez, Paula Josefina; Fuehrer, Hans-Peter; Roper, Cally; Nosten, Francois; Sutherland, Colin; Clark, Taane G; Campino, Susana

Population-based genomic study of Plasmodium vivax malaria in seven Brazilian states and across South America. (2023) Ibrahim, Amy; Manko, Emilia; Dombrowski, Jamille G; Campos, Mónica; Benavente, Ernest Diez; Nolder, Debbie; Sutherland, Colin J; Nosten, Francois; Fernandez, Diana; Vélez-Tobón, Gabriel; Castaño, Alberto Tobón; Aguiar, Anna Caroline C; Pereira, Dhelio Batista; da Silva Santos, Simone; Suarez-Mutis, Martha; Di Santi, Silvia Maria; Regina de Souza Baptista, Andrea; Dantas Machado, Ricardo Luiz; Marinho, Claudio RF; Clark, Taane G; Campino, Susana

Whole genome sequencing of drug resistant Mycobacterium tuberculosis isolates from a high burden tuberculosis region of North West Pakistan. (2019) Jabbar, Abdul; Phelan, Jody E; de Sessions, Paola Florez; Khan, Taj Ali; Rahman, Hazir; Khan, Sadiq Noor; Cantillon, Daire M; Wildner, Leticia Muraro; Ali, Sajid; Campino, Susana; Waddell, Simon J; Clark, Taane G

The Evolution and Transmission Dynamics of Multidrug-Resistant Tuberculosis in an Isolated High-Plateau Population of Tibet, China. (2023) Jiang, Qi; Liu, Hai-Can; Liu, Qing-Yun; Phelan, Jody E; Tao, Feng-Xi; Zhao, Xiu-Qin; Wang, Jian; Glynn, Judith R; Takiff, Howard E; Clark, Taane G; Wan, Kang-Lin; Gao, Qian

A transcriptional switch underlies commitment tosexual development in malaria parasites. (2014) Kafsack, BF; Rovira-Graells, N; Clark, TG; Bancells, C; Crowley, VM; Campino, SG; Williams, AE; Drought, LG; Kwiatkowski, DP; Baker, DA; Cortés, A; Llinás, M

Single nucleotide polymorphisms in efflux pumps genes in extensively drug resistant Mycobacterium tuberculosis isolates from Pakistan. (2017) Kanji, A; Hasan, R; Ali, A; Zaver, A; Zhang, Y; Imtiaz, K; Shi, W; Clark, TG; McNerney, R; Phelan, J; Rao, S; Shafiq, S; Hasan, Z

Alternate efflux pump mechanism may contribute to drug resistance in extensively drug-resistant isolates of Mycobacterium tuberculosis. (2016) Kanji, Akbar; Hasan, Rumina; Zaver, Ambreen; Ali, Asho; Imtiaz, Kehkashan; Ashraf, Mussarat; Clark, Taane G; McNerney, Ruth; Shafiq, Samreen; Hasan, Zahra

Characterization of genomic variations in SNPs of PE_PGRS genes reveals deletions and insertions in extensively drug resistant (XDR) M. tuberculosis strains from Pakistan. (2015) Kanji, Akbar; Hasan, Zahra; Ali, Asho; McNerney, Ruth; Mallard, Kim; Coll, Francesc; Hill-Cawthorne, Grant; Nair, Mridul; Clark, Taane G; Zaver, Ambreen; Jafri, Sana; Hasan, Rumina

The genetic risk of acute seizures in African children with falciparum malaria. (2013) Kariuki, Symon M; Rockett, Kirk; Clark, Taane G; Reyburn, Hugh; Agbenyega, Tsiri; Taylor, Terrie E; Birbeck, Gretchen L; Williams, Thomas N; Newton, Charles RJC

Whole genome sequencing of Mycobacterium tuberculosis isolates and clinical outcomes of patients treated for multidrug-resistant tuberculosis in Tanzania. (2020) Katale, Bugwesa Z; Mbelele, Peter M; Lema, Nsiande A; Campino, Susana; Mshana, Stephen E; Rweyemamu, Mark M; Phelan, Jody E; Keyyu, Julius D; Majigo, Mtebe; Mbugi, Erasto V; Dockrell, Hazel M; Clark, Taane G; Matee, Mecky I; Mpagama, Stellah

Genetic diversity and risk factors for the transmission of antimicrobial resistance across human, animals and environmental compartments in East Africa: a review. (2020) Katale, Bugwesa Z; Misinzo, Gerald; Mshana, Stephen E; Chiyangi, Harriet; Campino, Susana; Clark, Taane G; Good, Liam; Rweyemamu, Mark M; Matee, Mecky I

Characterization of rifampicin-resistant Mycobacterium tuberculosis in Khyber Pakhtunkhwa, Pakistan. (2021) Khan, Anwar Sheed; Phelan, Jody E; Khan, Muhammad Tahir; Ali, Sajid; Qasim, Muhammad; Napier, Gary; Campino, Susana; Ahmad, Sajjad; Cabral-Marques, Otavio; Zhang, Shulin; Rahman, Hazir; Wei, Dong-Qing; Clark, Taane G; Khan, Taj Ali

Author Correction: Characterization of rifampicin-resistant Mycobacterium tuberculosis in Khyber Pakhtunkhwa, Pakistan. (2021) Khan, Anwar Sheed; Phelan, Jody E; Khan, Muhammad Tahir; Ali, Sajid; Qasim, Muhammad; Napier, Gary; Campino, Susana; Ahmad, Sajjad; Cabral-Marques, Otavio; Zhang, Shulin; Rahman, Hazir; Wei, Dong-Qing; Clark, Taane G; Khan, Taj Ali

Further Evidence of Increasing Diversity of Plasmodium vivax in the Republic of Korea in Recent Years. (2016) Kim, Jung-Yeon; Goo, Youn-Kyoung; Zo, Young-Gun; Ji, So-Young; Trimarsanto, Hidayat; To, Sheren; Clark, Taane G; Price, Ric N; Auburn, Sarah

Human Coronavirus NL63 Molecular Epidemiology and Evolutionary Patterns in Rural Coastal Kenya. (2018) Kiyuka, Patience K; Agoti, Charles N; Munywoki, Patrick K; Njeru, Regina; Bett, Anne; Otieno, James R; Otieno, Grieven P; Kamau, Everlyn; Clark, Taane G; van der Hoek, Lia; Kellam, Paul; Nokes, D James; Cotten, Matthew

Towards environmental detection, quantification, and molecular characterization of Anopheles stephensi and Aedes aegypti from experimental larval breeding sites. (2023) Kristan, Mojca; Acford-Palmer, Holly; Campos, Monica Oliveira; Collins, Emma L; Phelan, Jody; Portwood, Natalie M; Pelloquin, Bethanie; Clarke, Sian; Lines, Jo; Clark, Taane G; Walker, Thomas; Campino, Susana; Messenger, Louisa A

Genomic surveillance of SARS-COV-2 reveals diverse circulating variant lineages in Nairobi and Kiambu Counties, Kenya. (2022) Kuja, Josiah O; Kanoi, Bernard N; Balboa, Renzo F; Shiluli, Clement; Maina, Michael; Waweru, Harrison; Gathii, Kimita; Mungai, Mary; Masika, Moses; Anzala, Omu; Mwau, Matilu; Clark, Taane G; Waitumbi, John; Gitaka, Jesse

The UK ME/CFS Biobank for biomedical research on Myalgic Encephalomyelitis/Chronic Fatigue Syndrome (ME/CFS) and Multiple Sclerosis. (2017) Lacerda, Eliana M; Bowman, Erinna W; Cliff, Jacqueline M; Kingdon, Caroline C; King, Elizabeth C; Lee, Ji-Sook; Clark, Taane G; Dockrell, Hazel M; Riley, Eleanor M; Curran, Hayley; Nacul, Luis

Population-based analysis of ocular Chlamydia trachomatis in trachoma-endemic West African communities identifies genomic markers of disease severity. (2018) 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

Population-based analysis of ocular<i>Chlamydia trachomatis</i>in trachoma-endemic West African communities identifies genomic markers of disease severity. (2017) 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

Targeted restoration of the intestinal microbiota with a simple, defined bacteriotherapy resolves relapsing Clostridium difficile disease in mice. (2012) Lawley, Trevor D; Clare, Simon; Walker, Alan W; Stares, Mark D; Connor, Thomas R; Raisen, Claire; Goulding, David; Rad, Roland; Schreiber, Fernanda; Brandt, Cordelia; Deakin, Laura J; Pickard, Derek J; Duncan, Sylvia H; Flint, Harry J; Clark, Taane G; Parkhill, Julian; Dougan, Gordon

Enrichment of Clinically Relevant Organisms in Spontaneous Preterm-Delivered Placentas and Reagent Contamination across All Clinical Groups in a Large Pregnancy Cohort in the United Kingdom. (2018) Leon, Lydia J; Doyle, Ronan; Diez-Benavente, Ernest; Clark, Taane G; Klein, Nigel; Stanier, Philip; Moore, Gudrun E

Deep learning-derived cardiovascular age shares a genetic basis with other cardiac phenotypes. (2022) Libiseller-Egger, Julian; Phelan, Jody E; Attia, Zachi I; Benavente, Ernest Diez; Campino, Susana; Friedman, Paul A; Lopez-Jimenez, Francisco; Leon, David A; Clark, Taane G

TB-ML-a framework for comparing machine learning approaches to predict drug resistance of Mycobacterium tuberculosis. (2023) Libiseller-Egger, Julian; Wang, Linfeng; Deelder, Wouter; Campino, Susana; Clark, Taane G; Phelan, Jody E

Genetic diversity and population structure of Plasmodium vivax in Central China. (2014) Liu, Yaobao; Auburn, Sarah; Cao, Jun; Trimarsanto, Hidayat; Zhou, Huayun; Gray, Karen-Ann; Clark, Taane G; Price, Ric N; Cheng, Qin; Huang, Rui; Gao, Qi

Fc gamma receptor IIa-H131R polymorphism and malaria susceptibility in sympatric ethnic groups, Fulani and Dogon of Mali. (2013) Maiga, B; Dolo, A; Touré, O; Dara, V; Tapily, A; Campino, S; Sepulveda, N; Corran, P; Rockett, K; Clark, TG; Blomberg, M Troye; Doumbo, OK

Glucose-6-phosphate dehydrogenase polymorphisms and susceptibility to mild malaria in Dogon and Fulani, Mali. (2014) Maiga, Bakary; Dolo, Amagana; Campino, Susana; Sepulveda, Nuno; Corran, Patrick; Rockett, Kirk A; Troye-Blomberg, Marita; Doumbo, Ogobara K; Clark, Taane G

Human candidate polymorphisms in sympatric ethnic groups differing in malaria susceptibility in Mali. (2013) Maiga, Bakary; Dolo, Amagana; Touré, Ousmane; Dara, Victor; Tapily, Amadou; Campino, Susana; Sepulveda, Nuno; Risley, Paul; Silva, Nilupa; Corran, Patrick; Rockett, Kirk A; Kwiatkowski, Dominic; MalariaGEN Consortium; Clark, Taane G; Troye-Blomberg, Marita; Doumbo, Ogobara K

Lack of association of interferon regulatory factor 1 with severe malaria in affected child-parental trio studies across three African populations. (2009) Mangano, Valentina D; Clark, Taane G; Auburn, Sarah; Campino, Susana; Diakite, Mahamadou; Fry, Andrew E; Green, Angela; Richardson, Anna; Jallow, Muminatou; Sisay-Joof, Fatou; Pinder, Margaret; Griffiths, Michael J; Newton, Charles; Peshu, Norbert; Williams, Thomas N; Marsh, Kevin; Molyneux, Malcolm E; Taylor, Terrie E; Modiano, David; Kwiatkowski, Dominic P; Rockett, Kirk A

Candidate human genetic polymorphisms and severe malaria in a Tanzanian population. (2012) Manjurano, Alphaxard; Clark, Taane G; Nadjm, Behzad; Mtove, George; Wangai, Hannah; Sepulveda, Nuno; Campino, Susana G; Maxwell, Caroline; Olomi, Raimos; Rockett, Kirk R; Jeffreys, Anna; MalariaGen Consortium; Riley, Eleanor M; Reyburn, Hugh; Drakeley, Christopher

Association of sub-microscopic malaria parasite carriage with transmission intensity in north-eastern Tanzania. (2011) Manjurano, Alphaxard; Okell, Lucy; Lukindo, Tedson; Reyburn, Hugh; Olomi, Raimos; Roper, Cally; Clark, Taane G; Joseph, Sarah; Riley, Eleanor M; Drakeley, Chris

African glucose-6-phosphate dehydrogenase alleles associated with protection from severe malaria in heterozygous females in Tanzania. (2015) Manjurano, Alphaxard; Sepulveda, Nuno; Nadjm, Behzad; Mtove, George; Wangai, Hannah; Maxwell, Caroline; Olomi, Raimos; Reyburn, Hugh; Riley, Eleanor M; Drakeley, Christopher J; Clark, Taane G; MalariaGEN Consortium

USP38, FREM3, SDC1, DDC, and LOC727982 Gene Polymorphisms and Differential Susceptibility to Severe Malaria in Tanzania. (2015) Manjurano, Alphaxard; Sepúlveda, Nuno; Nadjm, Behzad; Mtove, George; Wangai, Hannah; Maxwell, Caroline; Olomi, Raimos; Reyburn, Hugh; Drakeley, Christopher J; Riley, Eleanor M; Clark, Taane G; in Collaboration With MalariaGEN

Analysis of Plasmodium falciparum diversity in natural infections by deep sequencing. (2012) Manske, Magnus; Miotto, Olivo; Campino, Susana; Auburn, Sarah; Almagro-Garcia, Jacob; Maslen, Gareth; O'Brien, Jack; Djimde, Abdoulaye; Doumbo, Ogobara; Zongo, Issaka; Ouedraogo, Jean-Bosco; Michon, Pascal; Mueller, Ivo; Siba, Peter; Nzila, Alexis; Borrmann, Steffen; Kiara, Steven M; Marsh, Kevin; Jiang, Hongying; Su, Xin-Zhuan; Amaratunga, Chanaki; Fairhurst, Rick; Socheat, Duong; Nosten, Francois; Imwong, Mallika; White, Nicholas J; Sanders, Mandy; Anastasi, Elisa; Alcock, Dan; Drury, Eleanor; Oyola, Samuel; Quail, Michael A; Turner, Daniel J; Ruano-Rubio, Valentin; Jyothi, Dushyanth; Amenga-Etego, Lucas; Hubbart, Christina; Jeffreys, Anna; Rowlands, Kate; Sutherland, Colin; Roper, Cally; Mangano, Valentina; Modiano, David; Tan, John C; Ferdig, Michael T; Amambua-Ngwa, Alfred; Conway, David J; Takala-Harrison, Shannon; Plowe, Christopher V; Rayner, Julian C; Rockett, Kirk A; Clark, Taane G; Newbold, Chris I; Berriman, Matthew; MacInnis, Bronwyn; Kwiatkowski, Dominic P

Non-lactose fermenting Escherichia coli: Following in the footsteps of lactose fermenting E. coli high-risk clones. (2022) Mazumder, Razib; Hussain, Arif; Phelan, Jody E; Campino, Susana; Haider, SM Arefeen; Mahmud, Araf; Ahmed, Dilruba; Asadulghani, Md; Clark, Taane G; Mondal, Dinesh

Removing the bottleneck in whole genome sequencing of Mycobacterium tuberculosis for rapid drug resistance analysis: a call to action. (2016) McNerney, Ruth; Clark, Taane G; Campino, Susana; Rodrigues, Camilla; Dolinger, David; Smith, Liezel; Cabibbe, Andrea M; Dheda, Keertan; Schito, Marco

The antimalarial efficacy and mechanism of resistance of the novel chemotype DDD01034957. (2021) Miguel-Blanco, Celia; Murithi, James M; Benavente, Ernest Diez; Angrisano, Fiona; Sala, Katarzyna A; van Schalkwyk, Donelly A; Vanaerschot, Manu; Schwach, Frank; Fuchter, Matthew J; Billker, Oliver; Sutherland, Colin J; Campino, Susana G; Clark, Taane G; Blagborough, Andrew M; Fidock, David A; Herreros, Esperanza; Gamo, Francisco Javier; Baum, Jake; Delves, Michael J

Genome-wide analysis of selection on the malaria parasite Plasmodium falciparum in West African populations of differing infection endemicity. (2014) Mobegi, Victor A; Duffy, Craig W; Amambua-Ngwa, Alfred; Loua, Kovana M; Laman, Eugene; Nwakanma, Davis C; MacInnis, Bronwyn; Aspeling-Jones, Harvey; Murray, Lee; Clark, Taane G; Kwiatkowski, Dominic P; Conway, David J

Rapid and iterative genome editing in the malaria parasite Plasmodium knowlesi provides new tools for P. vivax research. (2019) Mohring, Franziska; Hart, Melissa Natalie; Rawlinson, Thomas A; Henrici, Ryan; Charleston, James A; Diez Benavente, Ernest; Patel, Avnish; Hall, Joanna; Almond, Neil; Campino, Susana; Clark, Taane G; Sutherland, Colin J; Baker, David A; Draper, Simon J; Moon, Robert William

Molecular characterization of drug-resistant Mycobacterium tuberculosis among Filipino patients derived from the national tuberculosis prevalence survey Philippines 2016. (2022) Montoya, Jaime C; Malabad, John Carlo M; Ang, Concepcion F; Reyes, Lorenzo T; Basilio, Ramon P; Lim, Dodge R; Amarillo, Maria Lourdes E; Ama, Ma Cecilia G; Phelan, Jody E; Hibberd, Martin L; Clark, Taane G

Genomic epidemiology of Plasmodium falciparum and its Anopheline vectors in the context of malaria control on the Bijagós Archipelago of Guinea-Bissau. (2024) Moss, SJ

Phenotypic evidence of deltamethrin resistance and identification of selective sweeps in Anopheles mosquitoes on the Bijagós Archipelago, Guinea-Bissau. (2024) Moss, Sophie; Jones, Robert T; Pretorius, Elizabeth; da Silva, Eunice Teixeira; Higgins, Matthew; Kristan, Mojca; Acford-Palmer, Holly; Collins, Emma L; Rodrigues, Amabelia; Krishna, Sanjeev; Clark, Taane G; Last, Anna; Campino, Susana

How has mass drug administration with dihydroartemisinin-piperaquine impacted molecular markers of drug resistance? A systematic review. (2022) Moss, Sophie; Mańko, Emilia; Krishna, Sanjeev; Campino, Susana; Clark, Taane G; Last, Anna

Population dynamics and drug resistance mutations in Plasmodium falciparum on the Bijagós Archipelago, Guinea-Bissau. (2023) Moss, Sophie; Mańko, Emilia; Vasileva, Hristina; Da Silva, Eunice Teixeira; Goncalves, Adriana; Osborne, Ashley; Phelan, Jody; Rodrigues, Amabelia; Djata, Paulo; D'Alessandro, Umberto; Mabey, David; Krishna, Sanjeev; Last, Anna; Clark, Taane G; Campino, Susana

Whole genome sequence analysis of population structure and insecticide resistance markers in Anopheles melas from the Bijagós Archipelago, Guinea-Bissau. (2024) Moss, Sophie; Pretorius, Elizabeth; Ceesay, Sainey; da Silva, Eunice Teixeira; Hutchins, Harry; Ndiath, Mamadou Ousmane; Acford-Palmer, Holly; Collins, Emma L; Higgins, Matthew; Phelan, Jody; Jones, Robert T; Vasileva, Hristina; Rodrigues, Amabelia; Krishna, Sanjeev; Clark, Taane G; Last, Anna; Campino, Susana

Genome-wide saturation mutagenesis of Burkholderia pseudomallei K96243 predicts essential genes and novel targets for antimicrobial development. (2014) Moule, Madeleine G; Hemsley, Claudia M; Seet, Qihui; Guerra-Assunção, José Afonso; Lim, Jiali; Sarkar-Tyson, Mitali; Clark, Taane G; Tan, Patrick BO; Titball, Richard W; Cuccui, Jon; Wren, Brendan W

Characterization of New Virulence Factors Involved in the Intracellular Growth and Survival of Burkholderia pseudomallei. (2015) Moule, Madeleine G; Spink, Natasha; Willcocks, Sam; Lim, Jiali; Guerra-Assunção, José Afonso; Cia, Felipe; Champion, Olivia L; Senior, Nicola J; Atkins, Helen S; Clark, Taane; Bancroft, Gregory J; Cuccui, Jon; Wren, Brendan W

Hand Grip Strength as a Clinical Biomarker for ME/CFS and Disease Severity. (2018) Nacul, Luis Carlos; Mudie, Kathleen; Kingdon, Caroline C; Clark, Taane G; Lacerda, Eliana Mattos

How Myalgic Encephalomyelitis/Chronic Fatigue Syndrome (ME/CFS) Progresses: The Natural History of ME/CFS. (2020) Nacul, Luis; O'Boyle, Shennae; Palla, Luigi; Nacul, Flavio E; Mudie, Kathleen; Kingdon, Caroline C; Cliff, Jacqueline M; Clark, Taane G; Dockrell, Hazel M; Lacerda, Eliana M

Evidence of Clinical Pathology Abnormalities in People with Myalgic Encephalomyelitis/Chronic Fatigue Syndrome (ME/CFS) from an Analytic Cross-Sectional Study. (2019) Nacul, Luis; de Barros, Barbara; Kingdon, Caroline C; Cliff, Jacqueline M; Clark, Taane G; Mudie, Kathleen; Dockrell, Hazel M; Lacerda, Eliana M

SVAMP: sequence variation analysis, maps and phylogeny. (2014) Naeem, Raeece; Hidayah, Lailatul; Preston, Mark D; Clark, Taane G; Pain, Arnab

Role of Alanine Racemase Mutations in Mycobacterium tuberculosis d-Cycloserine Resistance. (2017) Nakatani, Yoshio; Opel-Reading, Helen K; Merker, Matthias; Machado, Diana; Andres, Sönke; Kumar, S Siva; Moradigaravand, Danesh; Coll, Francesc; Perdigão, João; Portugal, Isabel; Schön, Thomas; Nair, Dina; Devi, KR Uma; Kohl, Thomas A; Beckert, Patrick; Clark, Taane G; Maphalala, Gugu; Khumalo, Derrick; Diel, Roland; Klaos, Kadri; Aung, Htin Lin; Cook, Gregory M; Parkhill, Julian; Peacock, Sharon J; Swaminathan, Soumya; Viveiros, Miguel; Niemann, Stefan; Krause, Kurt L; Köser, Claudio U

Using whole genome sequencing data to identify strain-types, transmission enhancers and novel drug resistance mutations of Mycobacterium tuberculosis. (2023) Napier, G

Robust barcoding and identification of Mycobacterium tuberculosis lineages for epidemiological and clinical studies. (2020) Napier, Gary; Campino, Susana; Merid, Yared; Abebe, Markos; Woldeamanuel, Yimtubezinash; Aseffa, Abraham; Hibberd, Martin L; Phelan, Jody; Clark, Taane G

Characterisation of drug-resistant Mycobacterium tuberculosis mutations and transmission in Pakistan. (2022) Napier, Gary; Khan, Anwar Sheed; Jabbar, Abdul; Khan, Muhammad Tahir; Ali, Sajid; Qasim, Muhammad; Mohammad, Noor; Hasan, Rumina; Hasan, Zahra; Campino, Susana; Ahmad, Sajjad; Khattak, Baharullah; Waddell, Simon J; Khan, Taj Ali; Phelan, Jody E; Clark, Taane G

Human candidate gene polymorphisms and risk of severe malaria in children in Kilifi, Kenya: a case-control association study. (2018) Ndila, Carolyne M; Uyoga, Sophie; Macharia, Alexander W; Nyutu, Gideon; Peshu, Norbert; Ojal, John; Shebe, Mohammed; Awuondo, Kennedy O; Mturi, Neema; Tsofa, Benjamin; Sepúlveda, Nuno; Clark, Taane G; Band, Gavin; Clarke, Geraldine; Rowlands, Kate; Hubbart, Christina; Jeffreys, Anna; Kariuki, Silvia; Marsh, Kevin; Mackinnon, Margaret; Maitland, Kathryn; Kwiatkowski, Dominic P; Rockett, Kirk A; Williams, Thomas N; MalariaGEN Consortium

Risk factors for SARS-CoV-2 infection in primary and secondary school students and staff in England in the 2020/2021 school year: a longitudinal study. (2023) Nguipdop-Djomo, Patrick; Oswald, William E; Halliday, Katherine E; Cook, Sarah; Sturgess, Joanna; Sundaram, Neisha; Warren-Gash, Charlotte; Fine, Paul Em; Glynn, Judith; Allen, Elizabeth; Clark, Taane G; Ford, Benjamin; Judd, Alison; Ireland, Georgina; Poh, John; Bonell, Chris; Dawe, Fiona; Rourke, Emma; Diamond, Ian; Ladhani, Shamez N; Langan, Sinéad M; Hargreaves, James; Mangtani, Punam; COVID-19 Schools Infection Survey Study Group

Clusters of Drug-Resistant Mycobacterium tuberculosis Detected by Whole-Genome Sequence Analysis of Nationwide Sample, Thailand, 2014-2017. (2021) Nonghanphithak, Ditthawat; Chaiprasert, Angkana; Smithtikarn, Saijai; Kamolwat, Phalin; Pungrassami, Petchawan; Chongsuvivatwong, Virasakdi; Mahasirimongkol, Surakameth; Reechaipichitkul, Wipa; Leepiyasakulchai, Chaniya; Phelan, Jody E; Blair, David; Clark, Taane G; Faksri, Kiatichai

Contrasting Transmission Dynamics of Co-endemic Plasmodium vivax and P. falciparum: Implications for Malaria Control and Elimination. (2015) Noviyanti, Rintis; Coutrier, Farah; Utami, Retno AS; Trimarsanto, Hidayat; Tirta, Yusrifar K; Trianty, Leily; Kusuma, Andreas; Sutanto, Inge; Kosasih, Ayleen; Kusriastuti, Rita; Hawley, William A; Laihad, Ferdinand; Lobo, Neil; Marfurt, Jutta; Clark, Taane G; Price, Ric N; Auburn, Sarah

Changes in malaria parasite drug resistance in an endemic population over a 25-year period with resulting genomic evidence of selection. (2013) Nwakanma, Davis C; Duffy, Craig W; Amambua-Ngwa, Alfred; Oriero, Eniyou C; Bojang, Kalifa A; Pinder, Margaret; Drakeley, Chris J; Sutherland, Colin J; Milligan, Paul J; Macinnis, Bronwyn; Kwiatkowski, Dominic P; Clark, Taane G; Greenwood, Brian M; Conway, David J

A Natural History of Disease Framework for Improving the Prevention, Management, and Research on Post-viral Fatigue Syndrome and Other Forms of Myalgic Encephalomyelitis/Chronic Fatigue Syndrome. (2021) O'Boyle, Shennae; Nacul, Luis; Nacul, Flavio E; Mudie, Kathleen; Kingdon, Caroline C; Cliff, Jacqueline M; Clark, Taane G; Dockrell, Hazel M; Lacerda, Eliana M

An inter-laboratory study to investigate the impact of the bioinformatics component on microbiome analysis using mock communities. (2021) O'Sullivan, Denise M; Doyle, Ronan M; Temisak, Sasithon; Redshaw, Nicholas; Whale, Alexandra S; Logan, Grace; Huang, Jiabin; Fischer, Nicole; Amos, Gregory CA; Preston, Mark D; Marchesi, Julian R; Wagner, Josef; Parkhill, Julian; Motro, Yair; Denise, Hubert; Finn, Robert D; Harris, Kathryn A; Kay, Gemma L; O'Grady, Justin; Ransom-Jones, Emma; Wu, Huihai; Laing, Emma; Studholme, David J; Benavente, Ernest Diez; Phelan, Jody; Clark, Taane G; Moran-Gilad, Jacob; Huggett, Jim F

Whole-genome scans provide evidence of adaptive evolution in Malawian Plasmodium falciparum isolates. (2014) Ocholla, Harold; Preston, Mark D; Mipando, Mwapatsa; Jensen, Anja TR; Campino, Susana; MacInnis, Bronwyn; Alcock, Daniel; Terlouw, Anja; Zongo, Issaka; Oudraogo, Jean-Bosco; Djimde, Abdoulaye A; Assefa, Samuel; Doumbo, Ogobara K; Borrmann, Steffen; Nzila, Alexis; Marsh, Kevin; Fairhurst, Rick M; Nosten, Francois; Anderson, Tim JC; Kwiatkowski, Dominic P; Craig, Alister; Clark, Taane G; Montgomery, Jacqui

Investigating the genomic basis of antimicrobial resistance in Mycobacterium tuberculosis (Mtb) using genome-wide methodologies. (2020) Oppong, YEA

Genome-wide analysis of Mycobacterium tuberculosis polymorphisms reveals lineage-specific associations with drug resistance. (2019) Oppong, Yaa EA; Phelan, Jody; Perdigão, João; Machado, Diana; Miranda, Anabela; Portugal, Isabel; Viveiros, Miguel; Clark, Taane G; Hibberd, Martin L

De Novo Assembly of Plasmodium knowlesi Genomes From Clinical Samples Explains the Counterintuitive Intrachromosomal Organization of Variant SICAvar and kir Multiple Gene Family Members. (2022) Oresegun, Damilola R; Thorpe, Peter; Benavente, Ernest Diez; Campino, Susana; Muh, Fauzi; Moon, Robert William; Clark, Taane Gregory; Cox-Singh, Janet

Electrochemical Detection of Single-Nucleotide Polymorphism Associated with Rifampicin Resistance in Mycobacterium tuberculosis Using Solid-Phase Primer Elongation with Ferrocene-Linked Redox-Labeled Nucleotides. (2021) Ortiz, Mayreli; Jauset-Rubio, Miriam; Skouridou, Vasso; Machado, Diana; Viveiros, Miguel; Clark, Taane G; Simonova, Anna; Kodr, David; Hocek, Michal; O'Sullivan, Ciara K

A multifaceted investigation of the genomics of malaria, from parasite to host, using next-generation sequencing technologies. (2023) Osborne, AA

Characterizing the genomic variation and population dynamics of Plasmodium falciparum malaria parasites in and around Lake Victoria, Kenya. (2021) Osborne, Ashley; Manko, Emilia; Takeda, Mika; Kaneko, Akira; Kagaya, Wataru; Chan, Chim; Ngara, Mtakai; Kongere, James; Kita, Kiyoshi; Campino, Susana; Kaneko, Osamu; Gitaka, Jesse; Clark, Taane G

Evidence for Host-Bacterial Co-evolution via Genome Sequence Analysis of 480 Thai Mycobacterium tuberculosis Lineage 1 Isolates. (2018) Palittapongarnpim, Prasit; Ajawatanawong, Pravech; Viratyosin, Wasna; Smittipat, Nat; Disratthakit, Areeya; Mahasirimongkol, Surakameth; Yanai, Hideki; Yamada, Norio; Nedsuwan, Supalert; Imasanguan, Worarat; Kantipong, Pacharee; Chaiyasirinroje, Boonchai; Wongyai, Jiraporn; Toyo-Oka, Licht; Phelan, Jody; Parkhill, Julian; Clark, Taane G; Hibberd, Martin L; Ruengchai, Wuthiwat; Palittapongarnpim, Panawun; Juthayothin, Tada; Tongsima, Sissades; Tokunaga, Katsushi

Genomic Epidemiology of Carbapenemase Producing Klebsiella pneumoniae Strains at a Northern Portuguese Hospital Enables the Detection of a Misidentified Klebsiella variicola KPC-3 Producing Strain. (2020) Perdigão, João; Caneiras, Cátia; Elias, Rita; Modesto, Ana; Spadar, Anton; Phelan, Jody; Campino, Susana; Clark, Taane G; Costa, Eliana; Saavedra, Maria José; Duarte, Aida

Using genomics to understand the origin and dispersion of multidrug and extensively drug resistant tuberculosis in Portugal. (2020) Perdigão, João; Gomes, Pedro; Miranda, Anabela; Maltez, Fernando; Machado, Diana; Silva, Carla; Phelan, Jody E; Brum, Laura; Campino, Susana; Couto, Isabel; Viveiros, Miguel; Clark, Taane G; Portugal, Isabel

Whole-genome sequencing resolves a polyclonal outbreak by extended-spectrum beta-lactam and carbapenem-resistant Klebsiella pneumoniae in a Portuguese tertiary-care hospital. (2020) Perdigão, João; Modesto, Ana; Pereira, AL; Neto, O; Matos, V; Godinho, A; Phelan, Jody; Charleston, James; Spadar, Anton; de Sessions, Paola Florez; Hibberd, Martin; Campino, Susana; Costa, A; Fernandes, F; Ferreira, F; Correia, AB; Gonçalves, Luisa; Clark, Taane G; Duarte, Aida

Clonal expansion across the seas as seen through CPLP-TB database: A joint effort in cataloguing Mycobacterium tuberculosis genetic diversity in Portuguese-speaking countries. (2018) Perdigão, João; Silva, Carla; Diniz, Jaciara; Pereira, Catarina; Machado, Diana; Ramos, Jorge; Silva, Hugo; Abilleira, Fernanda; Brum, Clarice; Reis, Ana J; Macedo, Maíra; Scaini, João L; Silva, Ana B; Esteves, Leonardo; Macedo, Rita; Maltez, Fernando; Clemente, Sofia; Coelho, Elizabeth; Viegas, Sofia; Rabna, Paulo; Rodrigues, Amabélia; Taveira, Nuno; Jordao, Luísa; Kritski, Afrânio; Lapa E Silva, José R; Mokrousov, Igor; Couvin, David; Rastogi, Nalin; Couto, Isabel; Pain, Arnab; McNerney, Ruth; Clark, Taane G; von Groll, Andrea; Dalla-Costa, Elis R; Rossetti, Maria Lúcia; Silva, Pedro EA; Viveiros, Miguel; Portugal, Isabel

Emergence of multidrug-resistant Mycobacterium tuberculosis of the Beijing lineage in Portugal and Guinea-Bissau: a snapshot of moving clones by whole-genome sequencing. (2020) Perdigão, João; Silva, Carla; Maltez, Fernando; Machado, Diana; Miranda, Anabela; Couto, Isabel; Rabna, Paulo; Florez de Sessions, Paola; Phelan, Jody; Pain, Arnab; McNerney, Ruth; Hibberd, Martin L; Mokrousov, Igor; Clark, Taane G; Viveiros, Miguel; Portugal, Isabel

Unraveling Mycobacterium tuberculosis genomic diversity and evolution in Lisbon, Portugal, a highly drug resistant setting. (2014) Perdigão, João; Silva, Hugo; Machado, Diana; Macedo, Rita; Maltez, Fernando; Silva, Carla; Jordao, Luisa; Couto, Isabel; Mallard, Kim; Coll, Francesc; Hill-Cawthorne, Grant A; McNerney, Ruth; Pain, Arnab; Clark, Taane G; Viveiros, Miguel; Portugal, Isabel

A bioinformatic analysis of Mycobacterium tuberculosis and host genomic data. (2018) Phelan, J

Recombination in pe/ppe genes contributes to genetic variation in Mycobacterium tuberculosis lineages. (2016) Phelan, Jody E; Coll, Francesc; Bergval, Indra; Anthony, Richard M; Warren, Rob; Sampson, Samantha L; Gey van Pittius, Nicolaas C; Glynn, Judith R; Crampin, Amelia C; Alves, Adriana; Bessa, Theolis Barbosa; Campino, Susana; Dheda, Keertan; Grandjean, Louis; Hasan, Rumina; Hasan, Zahra; Miranda, Anabela; Moore, David; Panaiotov, Stefan; Perdigao, Joao; Portugal, Isabel; Sheen, Patricia; de Oliveira Sousa, Erivelton; Streicher, Elizabeth M; van Helden, Paul D; Viveiros, Miguel; Hibberd, Martin L; Pain, Arnab; McNerney, Ruth; Clark, Taane G

Mycobacterium tuberculosis whole genome sequencing provides insights into the Manila strain and drug-resistance mutations in the Philippines. (2019) Phelan, Jody E; Lim, Dodge R; Mitarai, Satoshi; de Sessions, Paola Florez; Tujan, Ma Angelica A; Reyes, Lorenzo T; Medado, Inez Andrea P; Palparan, Alma G; Naim, Ahmad Nazri Mohamed; Jie, Song; Segubre-Mercado, Edelwisa; Simoes, Beatriz; Campino, Susana; Hafalla, Julius C; Murase, Yoshiro; Morishige, Yuta; Hibberd, Martin L; Kato, Seiya; Ama, Ma Cecilia G; Clark, Taane G

Integrating informatics tools and portable sequencing technology for rapid detection of resistance to anti-tuberculous drugs. (2019) Phelan, Jody E; O'Sullivan, Denise M; Machado, Diana; Ramos, Jorge; Oppong, Yaa EA; Campino, Susana; O'Grady, Justin; McNerney, Ruth; Hibberd, Martin L; Viveiros, Miguel; Huggett, Jim F; Clark, Taane G

Rapid profiling of Plasmodium parasites from genome sequences to assist malaria control. (2023) Phelan, Jody E; Turkiewicz, Anna; Manko, Emilia; Thorpe, Joseph; Vanheer, Leen N; van de Vegte-Bolmer, Marga; Ngoc, Nguyen Thi Hong; Binh, Nguyen Thi Huong; Thieu, Nguyen Quang; Gitaka, Jesse; Nolder, Debbie; Beshir, Khalid B; Dombrowski, Jamille G; Di Santi, Silvia Maria; Bousema, Teun; Sutherland, Colin J; Campino, Susana; Clark, Taane G

Mycobacterium tuberculosis whole genome sequencing and protein structure modelling provides insights into anti-tuberculosis drug resistance. (2016) Phelan, Jody; Coll, Francesc; McNerney, Ruth; Ascher, David B; Pires, Douglas EV; Furnham, Nick; Coeck, Nele; Hill-Cawthorne, Grant A; Nair, Mridul B; Mallard, Kim; Ramsay, Andrew; Campino, Susana; Hibberd, Martin L; Pain, Arnab; Rigouts, Leen; Clark, Taane G

COVID-profiler: a webserver for the analysis of SARS-CoV-2 sequencing data. (2022) Phelan, Jody; Deelder, Wouter; Ward, Daniel; Campino, Susana; Hibberd, Martin L; Clark, Taane G

Genome-wide host-pathogen analyses reveal genetic interaction points in tuberculosis disease. (2023) Phelan, Jody; Gomez-Gonzalez, Paula Josefina; Andreu, Nuria; Omae, Yosuke; Toyo-Oka, Licht; Yanai, Hideki; Miyahara, Reiko; Nedsuwan, Supalert; de Sessions, Paola Florez; Campino, Susana; Sallah, Neneh; Parkhill, Julian; Smittipat, Nat; Palittapongarnpim, Prasit; Mushiroda, Taisei; Kubo, Michiaki; Tokunaga, Katsushi; Mahasirimongkol, Surakameth; Hibberd, Martin L; Clark, Taane G

The draft genome of Mycobacterium aurum, a potential model organism for investigating drugs against Mycobacterium tuberculosis and Mycobacterium leprae. (2015) Phelan, Jody; Maitra, Arundhati; McNerney, Ruth; Nair, Mridul; Gupta, Antima; Coll, Francesc; Pain, Arnab; Bhakta, Sanjib; Clark, Taane G

The variability and reproducibility of whole genome sequencing technology for detecting resistance to anti-tuberculous drugs. (2016) Phelan, Jody; O'Sullivan, Denise M; Machado, Diana; Ramos, Jorge; Whale, Alexandra S; O'Grady, Justin; Dheda, Keertan; Campino, Susana; McNerney, Ruth; Viveiros, Miguel; Huggett, Jim F; Clark, Taane G

An open-access dashboard to interrogate the genetic diversity of Mycobacterium tuberculosis clinical isolates. (2024) Phelan, Jody; Van den Heede, Klaas; Masyn, Serge; Verbeeck, Rudi; Clark, Taane G; Lamprecht, Dirk A; Koul, Anil; Wall, Richard J

Methylation in Mycobacterium tuberculosis is lineage specific with associated mutations present globally. (2017) Phelan, Jody; de Sessions, Paola Florez; Tientcheu, Leopold; Perdigao, Joao; Machado, Diana; Hasan, Rumina; Hasan, Zahra; Bergval, Indra L; Anthony, Richard; McNerney, Ruth; Antonio, Martin; Portugal, Isabel; Viveiros, Miguel; Campino, Susana; Hibberd, Martin L; Clark, Taane G

Understanding molecular consequences of putative drug resistant mutations in Mycobacterium tuberculosis. (2018) Portelli, Stephanie; Phelan, Jody E; Ascher, David B; Clark, Taane G; Furnham, Nicholas

PlasmoView: a web-based resource to visualise global Plasmodium falciparum genomic variation. (2013) Preston, Mark D; Assefa, Samuel A; Ocholla, Harold; Sutherland, Colin J; Borrmann, Steffen; Nzila, Alexis; Michon, Pascal; Hien, Tran Tinh; Bousema, Teun; Drakeley, Christopher J; Zongo, Issaka; Ouédraogo, Jean-Bosco; Djimde, Abdoulaye A; Doumbo, Ogobara K; Nosten, Francois; Fairhurst, Rick M; Conway, David J; Roper, Cally; Clark, Taane G

A barcode of organellar genome polymorphisms identifies the geographic origin of Plasmodium falciparum strains. (2014) Preston, Mark D; Campino, Susana; Assefa, Samuel A; Echeverry, Diego F; Ocholla, Harold; Amambua-Ngwa, Alfred; Stewart, Lindsay B; Conway, David J; Borrmann, Steffen; Michon, Pascal; Zongo, Issaka; Ouédraogo, Jean-Bosco; Djimde, Abdoulaye A; Doumbo, Ogobara K; Nosten, Francois; Pain, Arnab; Bousema, Teun; Drakeley, Chris J; Fairhurst, Rick M; Sutherland, Colin J; Roper, Cally; Clark, Taane G

VarB: a variation browsing and analysis tool for variants derived from next-generation sequencing data. (2012) Preston, Mark D; Manske, Magnus; Horner, Neil; Assefa, Samuel; Campino, Susana; Auburn, Sarah; Zongo, Issaka; Ouedraogo, Jean-Bosco; Nosten, Francois; Anderson, Tim; Clark, Taane G

A bioinformatic analysis of malaria host and pathogen genomics. (2019) Ravenhall, M

Characterizing the impact of sustained sulfadoxine/pyrimethamine use upon the Plasmodium falciparum population in Malawi. (2016) Ravenhall, Matt; Benavente, Ernest Diez; Mipando, Mwapatsa; Jensen, Anja TR; Sutherland, Colin J; Roper, Cally; Sepúlveda, Nuno; Kwiatkowski, Dominic P; Montgomery, Jacqui; Phiri, Kamija S; Terlouw, Anja; Craig, Alister; Campino, Susana; Ocholla, Harold; Clark, Taane G

An analysis of large structural variation in global Plasmodium falciparum isolates identifies a novel duplication of the chloroquine resistance associated gene. (2019) Ravenhall, Matt; Benavente, Ernest Diez; Sutherland, Colin J; Baker, David A; Campino, Susana; Clark, Taane G

SV-Pop: population-based structural variant analysis and visualization. (2019) Ravenhall, Matt; Campino, Susana; Clark, Taane G

Novel genetic polymorphisms associated with severe malaria and under selective pressure in North-eastern Tanzania. (2017) Ravenhall, Matt; Campino, Susana; Sepúlveda, Nuno; Manjurano, Alphaxard; Nadjm, Behzad; Mtove, George; Wangai, Hannah; Maxwell, Caroline; Olomi, Raimos; Reyburn, Hugh; Drakeley, Christopher J; Riley, Eleanor M; Clark, Taane G; MalariaGEN

Turkish and Japanese Mycobacterium tuberculosis sublineages share a remote common ancestor. (2016) Refrégier, Guislaine; Abadia, Edgar; Matsumoto, Tomoshige; Ano, Hiromi; Takashima, Tetsuya; Tsuyuguchi, Izuo; Aktas, Elif; Cömert, Füsun; Gomgnimbou, Michel Kireopori; Panaiotov, Stefan; Phelan, Jody; Coll, Francesc; McNerney, Ruth; Pain, Arnab; Clark, Taane G; Sola, Christophe

Conjunctival fibrosis and the innate barriers to Chlamydia trachomatis intracellular infection: a genome wide association study. (2015) Roberts, Chrissy H; Franklin, Christopher S; Makalo, Pateh; Joof, Hassan; Sarr, Isatou; Mahdi, Olaimatu S; Sillah, Ansumana; Bah, Momodou; Payne, Felicity; Jeffreys, Anna E; Bottomley, William; Natividad, Angels; Molina-Gonzalez, Sandra; Burr, Sarah E; Preston, Mark; Kwiatkowski, Dominic; Rockett, Kirk A; Clark, Taane G; Burton, Matthew J; Mabey, David CW; Bailey, Robin; Barroso, Inês; Holland, Martin J

Drug-resistant genotypes and multi-clonality in Plasmodium falciparum analysed by direct genome sequencing from peripheral blood of malaria patients. (2011) Robinson, Timothy; Campino, Susana G; Auburn, Sarah; Assefa, Samuel A; Polley, Spencer D; Manske, Magnus; MacInnis, Bronwyn; Rockett, Kirk A; Maslen, Gareth L; Sanders, Mandy; Quail, Michael A; Chiodini, Peter L; Kwiatkowski, Dominic P; Clark, Taane G; Sutherland, Colin J

Imputation-based population genetics analysis of Plasmodium falciparum malaria parasites. (2015) Samad, Hanif; Coll, Francesc; Preston, Mark D; Ocholla, Harold; Fairhurst, Rick M; Clark, Taane G

Transforming growth factor beta 2 and heme oxygenase 1 genes are risk factors for the cerebral malaria syndrome in Angolan children. (2010) Sambo, Maria Rosário; Trovoada, Maria Jesus; Benchimol, Carla; Quinhentos, Vatúsia; Gonçalves, Lígia; Velosa, Rute; Marques, Maria Isabel; Sepúlveda, Nuno; Clark, Taane G; Mustafa, Stefan; Wagner, Oswald; Coutinho, António; Penha-Gonçalves, Carlos

A snapshot of translation in Mycobacterium tuberculosis during exponential growth and nutrient starvation revealed by ribosome profiling. (2021) Sawyer, Elizabeth B; Phelan, Jody E; Clark, Taane G; Cortes, Teresa

Bayesian compositional regression with microbiome features via variational inference. (2023) Scott, Darren AV; Benavente, Ernest; Libiseller-Egger, Julian; Fedorov, Dmitry; Phelan, Jody; Ilina, Elena; Tikhonova, Polina; Kudryavstev, Alexander; Galeeva, Julia; Clark, Taane; Lewin, Alex

Pyrazinamide resistance-conferring mutations in pncA and the transmission of multidrug resistant TB in Georgia. (2017) Sengstake, Sarah; Bergval, Indra L; Schuitema, Anja R; de Beer, Jessica L; Phelan, Jody; de Zwaan, Rina; Clark, Taane G; van Soolingen, Dick; Anthony, Richard M

A Poisson hierarchical modelling approach to detecting copy number variation in sequence coverage data. (2013) Sepúlveda, Nuno; Campino, Susana G; Assefa, Samuel A; Sutherland, Colin J; Pain, Arnab; Clark, Taane G

G6PD Polymorphisms and Hemolysis After Antimalarial Treatment With Low Single-Dose Primaquine: A Pooled Analysis of Six African Clinical Trials. (2021) Sepúlveda, Nuno; Grignard, Lynn; Curry, Jonathan; Mahey, Laleta; Bastiaens, Guido JH; Tiono, Alfred B; Okebe, Joseph; Coulibaly, Sam A; Gonçalves, Bronner P; Affara, Muna; Ouédraogo, Alphonse; Bougouma, Edith C; Sanou, Guillaume S; Nébié, Issa; Lanke, Kjerstin; Sirima, Sodiomon B; Dicko, Alassane; d'Alessandro, Umberto; Clark, Taane G; Campino, Susana; Chen, Ingrid; Eziefula, Alice C; Gosling, Roly; Bousema, Teun; Drakeley, Chris

Malaria Host Candidate Genes Validated by Association With Current, Recent, and Historical Measures of Transmission Intensity. (2017) Sepúlveda, Nuno; Manjurano, Alphaxard; Campino, Susana G; Lemnge, Martha; Lusingu, John; Olomi, Raimos; Rockett, Kirk A; Hubbart, Christina; Jeffreys, Anna; Rowlands, Kate; Clark, Taane G; Riley, Eleanor M; Drakeley, Chris J; MalariaGEN Consortium

On the performance of multiple imputation based on chained equations in tackling missing data of the African α3.7 -globin deletion in a malaria association study. (2014) Sepúlveda, Nuno; Manjurano, Alphaxard; Drakeley, Chris; Clark, Taane G

Global analysis of Plasmodium falciparum histidine-rich protein-2 (pfhrp2) and pfhrp3 gene deletions using whole-genome sequencing data and meta-analysis. (2018) Sepúlveda, Nuno; Phelan, Jody; Diez-Benavente, Ernest; Campino, Susana; Clark, Taane G; Hopkins, Heidi; Sutherland, Colin; Drakeley, Chris J; Beshir, Khalid B

A multiple genome analysis of Mycobacterium tuberculosis reveals specific novel genes and mutations associated with pyrazinamide resistance. (2017) Sheen, Patricia; Requena, David; Gushiken, Eduardo; Gilman, Robert H; Antiparra, Ricardo; Lucero, Bryan; Lizárraga, Pilar; Cieza, Basilio; Roncal, Elisa; Grandjean, Louis; Pain, Arnab; McNerney, Ruth; Clark, Taane G; Moore, David; Zimic, Mirko

Genetic determinants of anti-malarial acquired immunity in a large multi-centre study. (2015) Shelton, Jennifer MG; Corran, Patrick; Risley, Paul; Silva, Nilupa; Hubbart, Christina; Jeffreys, Anna; Rowlands, Kate; Craik, Rachel; Cornelius, Victoria; Hensmann, Meike; Molloy, Sile; Sepulveda, Nuno; Clark, Taane G; Band, Gavin; Clarke, Geraldine M; Spencer, Christopher CA; Kerasidou, Angeliki; Campino, Susana; Auburn, Sarah; Tall, Adama; Ly, Alioune Badara; Mercereau-Puijalon, Odile; Sakuntabhai, Anavaj; Djimdé, Abdoulaye; Maiga, Boubacar; Touré, Ousmane; Doumbo, Ogobara K; Dolo, Amagana; Troye-Blomberg, Marita; Mangano, Valentina D; Verra, Frederica; Modiano, David; Bougouma, Edith; Sirima, Sodiomon B; Ibrahim, Muntaser; Hussain, Ayman; Eid, Nahid; Elzein, Abier; Mohammed, Hiba; Elhassan, Ahmed; Elhassan, Ibrahim; Williams, Thomas N; Ndila, Carolyne; Macharia, Alexander; Marsh, Kevin; Manjurano, Alphaxard; Reyburn, Hugh; Lemnge, Martha; Ishengoma, Deus; Carter, Richard; Karunaweera, Nadira; Fernando, Deepika; Dewasurendra, Rajika; Drakeley, Christopher J; Riley, Eleanor M; Kwiatkowski, Dominic P; Rockett, Kirk A; MalariaGEN Consortium

Knowledge, attitudes and practices regarding antimicrobial use and resistance among communities of Ilala, Kilosa and Kibaha districts of Tanzania. (2020) Sindato, Calvin; Mboera, Leonard EG; Katale, Bugwesa Z; Frumence, Gasto; Kimera, Sharadhuli; Clark, Taane G; Legido-Quigley, Helena; Mshana, Stephen E; Rweyemamu, Mark M; Matee, Mecky

An In-Solution Hybridisation Method for the Isolation of Pathogen DNA from Human DNA-rich Clinical Samples for Analysis by NGS. (2012) Smith, Miriam; Campino, Susana; Gu, Yong; Clark, Taane G; Otto, Thomas D; Maslen, Gareth; Manske, Magnus; Imwong, Mallika; Dondorp, Arjen M; Kwiatkowski, Dominic P; Quail, Michael A; Swerdlow, Harold

Bayesian reconstruction of Mycobacterium tuberculosis transmission networks in a high incidence area over two decades in Malawi reveals associated risk factors and genomic variants. (2020) Sobkowiak, Benjamin; Banda, Louis; Mzembe, Themba; Crampin, Amelia C; Glynn, Judith R; Clark, Taane G

A new method for detecting mixed Mycobacterium tuberculosis infection and reconstructing constituent strains provides insights into transmission. (2025) Sobkowiak, Benjamin; Cudahy, Patrick; Chitwood, Melanie H; Clark, Taane G; Colijn, Caroline; Grandjean, Louis; Walter, Katharine S; Crudu, Valeriu; Cohen, Ted

Identifying mixed Mycobacterium tuberculosis infections from whole genome sequence data. (2018) Sobkowiak, Benjamin; Glynn, Judith R; Houben, Rein MGJ; Mallard, Kim; Phelan, Jody E; Guerra-Assunção, José Afonso; Banda, Louis; Mzembe, Themba; Viveiros, Miguel; McNerney, Ruth; Parkhill, Julian; Crampin, Amelia C; Clark, Taane G

Polymorphisms in leucine-rich repeat genes are associated with autism spectrum disorder susceptibility in populations of European ancestry. (2010) Sousa, Inês; Clark, Taane G; Holt, Richard; Pagnamenta, Alistair T; Mulder, Erik J; Minderaa, Ruud B; Bailey, Anthony J; Battaglia, Agatino; Klauck, Sabine M; Poustka, Fritz; Monaco, Anthony P; International Molecular Genetic Study of Autism Consortium (IMGS

Understanding the genetic diversity, antimicrobial resistance, and virulence of Klebsiella pneumoniae bacteria. (2023) Spadar, A

Uncovering the genetic diversity in Aedes aegypti insecticide resistance genes through global comparative genomics. (2024) Spadar, Anton; Collins, Emma; Messenger, Louisa A; Clark, Taane G; Campino, Susana

Genomic analysis of hypervirulent Klebsiella pneumoniae reveals potential genetic markers for differentiation from classical strains. (2022) Spadar, Anton; Perdigão, João; Campino, Susana; Clark, Taane G

Large-scale genomic analysis of global Klebsiella pneumoniae plasmids reveals multiple simultaneous clusters of carbapenem-resistant hypervirulent strains. (2023) Spadar, Anton; Perdigão, João; Campino, Susana; Clark, Taane G

Methylation analysis of Klebsiella pneumoniae from Portuguese hospitals. (2021) Spadar, Anton; Perdigão, João; Phelan, Jody; Charleston, James; Modesto, Ana; Elias, Rita; de Sessions, Paola Florez; Hibberd, Martin L; Campino, Susana; Duarte, Aida; Clark, Taane G

Flavivirus integrations in Aedes aegypti are limited and highly conserved across samples from different geographic regions unlike integrations in Aedes albopictus. (2021) Spadar, Anton; Phelan, Jody E; Benavente, Ernest Diez; Campos, Monica; Gomez, Lara Ferrero; Mohareb, Fady; Clark, Taane G; Campino, Susana

Large-scale reference-free analysis of flavivirus sequences in Aedes aegypti whole genome DNA sequencing data. (2023) Spadar, Anton; Phelan, Jody E; Clark, Taane G; Campino, Susana

Genomic epidemiological analysis of Klebsiella pneumoniae from Portuguese hospitals reveals insights into circulating antimicrobial resistance. (2022) Spadar, Anton; Phelan, Jody; Elias, Rita; Modesto, Ana; Caneiras, Cátia; Marques, Cátia; Lito, Luís; Pinto, Margarida; Cavaco-Silva, Patrícia; Ferreira, Helena; Pomba, Constança; Da Silva, Gabriela J; Saavedra, Maria José; Melo-Cristino, José; Duarte, Aida; Campino, Susana; Perdigão, João; Clark, Taane G

Genomic evidence supporting the clonal expansion of extensively drug-resistant tuberculosis bacteria belonging to a rare proto-Beijing genotype. (2020) Srilohasin, Prapaporn; Prammananan, Therdsak; Faksri, Kiatichai; Phelan, Jody E; Suriyaphol, Prapat; Kamolwat, Phalin; Smithtikarn, Saijai; Disratthakit, Areeya; Regmi, Sanjib Mani; Leechawengwongs, Manoon; Twee-Hee Ong, Rick; Teo, Yik Ying; Tongsima, Sissades; Clark, Taane G; Chaiprasert, Angkana

The <i>ahpC</i> c−54t compensatory mutation is not always a valid surrogate for isoniazid resistance in <i>Mycobacterium tuberculosis</i>. (2025) Szél, Viktória; Phelan, Jody E; Georghiou, Sophia B; Dolinger, David L; Clark, Taane G; Niemann, Stefan; Lőrinczi, Lilla K; Köser, Claudio U

Genetic loci associated with delayed clearance of Plasmodium falciparum following artemisinin treatment in Southeast Asia. (2012) Takala-Harrison, Shannon; Clark, Taane G; Jacob, Christopher G; Cummings, Michael P; Miotto, Olivo; Dondorp, Arjen M; Fukuda, Mark M; Nosten, Francois; Noedl, Harald; Imwong, Mallika; Bethell, Delia; Se, Youry; Lon, Chanthap; Tyner, Stuart D; Saunders, David L; Socheat, Duong; Ariey, Frederic; Phyo, Aung Pyae; Starzengruber, Peter; Fuehrer, Hans-Peter; Swoboda, Paul; Stepniewska, Kasia; Flegg, Jennifer; Arze, Cesar; Cerqueira, Gustavo C; Silva, Joana C; Ricklefs, Stacy M; Porcella, Stephen F; Stephens, Robert M; Adams, Matthew; Kenefic, Leo J; Campino, Susana; Auburn, Sarah; MacInnis, Bronwyn; Kwiatkowski, Dominic P; Su, Xin-zhuan; White, Nicholas J; Ringwald, Pascal; Plowe, Christopher V

Frequent Undetected Ward-Based Methicillin-Resistant Staphylococcus aureus Transmission Linked to Patient Sharing Between Hospitals. (2017) Tosas Auguet, Olga; Stabler, Richard A; Betley, Jason; Preston, Mark D; Dhaliwal, Mandeep; Gaunt, Michael; Ioannou, Avgousta; Desai, Nergish; Karadag, Tacim; Batra, Rahul; Otter, Jonathan A; Marbach, Helene; Clark, Taane G; Edgeworth, Jonathan D

Candidate polymorphisms and severe malaria in a Malian population. (2012) Toure, Ousmane; Konate, Salimata; Sissoko, Sibiri; Niangaly, Amadou; Barry, Abdoulaye; Sall, Abdourahmane H; Diarra, Elisabeth; Poudiougou, Belco; Sepulveda, Nuno; Campino, Susana; Rockett, Kirk A; Clark, Taane G; Thera, Mahamadou A; Doumbo, Ogobara; Collaboration with The MalariaGEN Consortium

VivaxGEN: An open access platform for comparative analysis of short tandem repeat genotyping data in Plasmodium vivax populations. (2017) Trimarsanto, Hidayat; Benavente, Ernest D; Noviyanti, Rintis; Utami, Retno Ayu Setya; Trianty, Leily; Pava, Zuleima; Getachew, Sisay; Kim, Jung-Yeon; Goo, Youn-Kyoung; Wangchuck, Sonam; Liu, Yaobao; Gao, Qi; Dowd, Simone; Cheng, Qin; Clark, Taane G; Price, Ric N; Auburn, Sarah

High clustering rate and genotypic drug-susceptibility screening for the newly recommended anti-tuberculosis drugs among global extensively drug-resistant Mycobacterium tuberculosis isolates. (2022) Trisakul, Kanwara; Nonghanphithak, Ditthawat; Chaiyachat, Pratchakan; Kaewprasert, Orawee; Sakmongkoljit, Kankanon; Reechaipichitkul, Wipa; Chaiprasert, Angkana; Blair, David; Clark, Taane G; Faksri, Kiatichai

Diversity, functional classification and genotyping of SHV β-lactamases in Klebsiella pneumoniae. (2024) Tsang, Kara K; Lam, Margaret MC; Wick, Ryan R; Wyres, Kelly L; Bachman, Michael; Baker, Stephen; Barry, Katherine; Brisse, Sylvain; Campino, Susana; Chiaverini, Alexandra; Cirillo, Daniela Maria; Clark, Taane; Corander, Jukka; Corbella, Marta; Cornacchia, Alessandra; Cuénod, Aline; D'Alterio, Nicola; Di Marco, Federico; Donado-Godoy, Pilar; Egli, Adrian; Farzana, Refath; Feil, Edward J; Fostervold, Aasmund; Gorrie, Claire L; Hassan, Brekhna; Hetland, Marit Andrea Klokkhammer; Hoa, Le Nguyen Minh; Hoi, Le Thi; Howden, Benjamin; Ikhimiukor, Odion O; Jenney, Adam WJ; Kaspersen, Håkon; Khokhar, Fahad; Leangapichart, Thongpan; Ligowska-Marzęta, Małgorzata; Löhr, Iren Høyland; Long, Scott W; Mathers, Amy J; McArthur, Andrew G; Nagaraj, Geetha; Oaikhena, Anderson O; Okeke, Iruka N; Perdigão, João; Parikh, Hardik; Pham, My H; Pomilio, Francesco; Raffelsberger, Niclas; Rakotondrasoa, Andriniaina; Kumar, KL Ravi; Roberts, Leah W; Rodrigues, Carla; Samuelsen, Ørjan; Sands, Kirsty; Sassera, Davide; Seth-Smith, Helena; Shamanna, Varun; Sherry, Norelle L; Sia, Sonia; Spadar, Anton; Stoesser, Nicole; Sunde, Marianne; Sundsfjord, Arnfinn; Thach, Pham Ngoc; Thomson, Nicholas R; Thorpe, Harry A; Torok, M Estée; Trang, Van Dinh; Trung, Nguyen Vu; Vornhagen, Jay; Walsh, Timothy; Warne, Ben; Wilson, Hayley; Wright, Gerard D; Holt, Kathryn E; KlebNET-Gsp Amr Genotype-Phenotype Group

Using Machine Learning to Anticipate Antimicrobial Resistance in Mycobacterium Tuberculosis. (2023) Tunstall, T

Structural and Genomic Insights Into Pyrazinamide Resistance in Mycobacterium tuberculosis Underlie Differences Between Ancient and Modern Lineages. (2021) Tunstall, Tanushree; Phelan, Jody; Eccleston, Charlotte; Clark, Taane G; Furnham, Nicholas

Combining structure and genomics to understand antimicrobial resistance. (2020) Tunstall, Tanushree; Portelli, Stephanie; Phelan, Jody; Clark, Taane G; Ascher, David B; Furnham, Nicholas

Population genetic analysis of Plasmodium knowlesi reveals differential selection and exchange events between Borneo and Peninsular sub-populations. (2023) Turkiewicz, Anna; Manko, Emilia; Oresegun, Damiola R; Nolder, Debbie; Spadar, Anton; Sutherland, Colin J; Cox-Singh, Janet; Moon, Robert W; Lau, Yee-Ling; Campino, Susana; Clark, Taane G

Genetic diversity of the Plasmodium falciparum GTP-cyclohydrolase 1, dihydrofolate reductase and dihydropteroate synthetase genes reveals new insights into sulfadoxine-pyrimethamine antimalarial drug resistance. (2020) Turkiewicz, Anna; Manko, Emilia; Sutherland, Colin J; Diez Benavente, Ernest; Campino, Susana; Clark, Taane G

Modest heterologous protection after Plasmodium falciparum sporozoite immunization: a double-blind randomized controlled clinical trial. (2017) Walk, Jona; Reuling, Isaie J; Behet, Marije C; Meerstein-Kessel, Lisette; Graumans, Wouter; van Gemert, Geert-Jan; Siebelink-Stoter, Rianne; van de Vegte-Bolmer, Marga; Janssen, Thorsten; Teelen, Karina; de Wilt, Johannes HW; de Mast, Quirijn; van der Ven, André J; Diez Benavente, Ernest; Campino, Susana; Clark, Taane G; Huynen, Martijn A; Hermsen, Cornelus C; Bijker, Else M; Scholzen, Anja; Sauerwein, Robert W

Whole genome sequencing analysis of Mycobacterium tuberculosis reveals circulating strain types and drug-resistance mutations in the Philippines. (2024) Wang, Linfeng; Lim, Dodge R; Phelan, Jody E; Reyes, Lorenzo T; Palparan, Alma G; Sanchez, Maria Guileane C; Asuncion, Louella Abigail A; Tujan, Ma Angelica A; Medado, Inez Andrea P; Daga, Chona Mae A; Llames, Jo-Hannah S; Mitarai, Satoshi; Murase, Yoshiro; Morishige, Yuta; Ang, Concepcion F; Malabad, John Carlo M; Montoya, Jaime C; Hafalla, Julius C; Campino, Susana; Hibberd, Martin L; Ama, Cecilia G; Basilio, Ramon P; La Paz, Eva Maria Cutiongoco-De; Clark, Taane G

Zika virus surveillance in human and mosquito populations in Cabo Verde – exploring molecular and serological tools for the surveillance of emerging infectious diseases. (2023) Ward, D

Sero-epidemiological study of arbovirus infection following the 2015-2016 Zika virus outbreak in Cabo Verde. (2022) Ward, Daniel; Gomes, Ana Rita; Tetteh, Kevin KA; Sepúlveda, Nuno; Gomez, Lara Ferrero; Campino, Susana; Clark, Taane G

An integrated in silico immuno-genetic analytical platform provides insights into COVID-19 serological and vaccine targets. (2021) Ward, Daniel; Higgins, Matthew; Phelan, Jody E; Hibberd, Martin L; Campino, Susana; Clark, Taane G

An integrated in silico immuno-genetic analytical platform provides insights into COVID-19 serological and vaccine targets. (2021) Ward, Daniel; Higgins, Matthew; Phelan, Jody E; Hibberd, Martin L; Campino, Susana; Clark, Taane G

Serological insights from SARS-CoV-2 heterologous prime and boost responses in Thailand. (2025) Ward, Daniel; Pattarapreeyakul, Lapasrada; Pitaksalee, Rujiraporn; Thawong, Naphatcha; Sawaengdee, Waritta; Tuntigumthon, Suthida; Patterson, Catriona; Tetteh, Kevin; Campino, Susana; Dhepakson, Panadda; Mahasirimongkol, Surakameth; Clark, Taane G

Investigation of host candidate malaria-associated risk/protective SNPs in a Brazilian Amazonian population. (2012) da Silva Santos, Simone; Clark, Taane G; Campino, Susana; Suarez-Mutis, Martha Cecília; Rockett, Kirk A; Kwiatkowski, Dominic P; Fernandes, Octavio

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Klebsiella pneumoniae and Colistin Susceptibility Testing: Performance Evaluation for Broth Microdilution, Agar Dilution and Minimum Inhibitory Concentration Test Strips and Impact of the "Skipped Well" Phenomenon. (2021) Elias, Rita; Melo-Cristino, José; Lito, Luís; Pinto, Margarida; Gonçalves, Luísa; Campino, Susana; Clark, Taane G; Duarte, Aida; Perdigão, João

Differences in the frequency of genetic variants associated with iron imbalance among global populations. (2020) Jallow, Momodou W; Cerami, Carla; Clark, Taane G; Prentice, Andrew M; Campino, Susana

Robust detection of point mutations involved in multidrug-resistant Mycobacterium tuberculosis in the presence of co-occurrent resistance markers. (2020) Libiseller-Egger, Julian; Phelan, Jody; Campino, Susana; Mohareb, Fady; Clark, Taane G

Ribosome profiling in<i>Mycobacterium tuberculosis</i>reveals robust leaderless translation. (2020) Sawyer, Elizabeth B; Phelan, Jody E; Clark, Taane G; Cortes, Teresa

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