Items where Author or Contributor is "Clark, Taane G"

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Number of items: 218.

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; +4 more... Nosten, Francois; Sutherland, Colin J; Campino, Susana; Clark, Taane G; (2020) A molecular barcode to inform the geographical origin and transmission dynamics of Plasmodium vivax malaria. PLoS genetics, 16 (2). e1008576-. ISSN 1553-7390 DOI: https://doi.org/10.1371/journal.pgen.1008576
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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; +11 more... 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; (2020) Discordant bioinformatic predictions of antimicrobial resistance from whole-genome sequencing data of bacterial isolates: an inter-laboratory study. Microbial Genomics, 6 (2). DOI: https://doi.org/10.1099/mgen.0.000335
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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; +4 more... Dockrell, Hazel M; Clark, Taane G; Matee, Mecky I; Mpagama, Stellah; (2020) Whole genome sequencing of Mycobacterium tuberculosis isolates and clinical outcomes of patients treated for multidrug-resistant tuberculosis in Tanzania. BMC GENOMICS, 21 (1). 174-. ISSN 1471-2164 DOI: https://doi.org/10.1186/s12864-020-6577-1
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Perdigão, João; Gomes, Pedro; Miranda, Anabela; Maltez, Fernando; Machado, Diana; Silva, Carla; Phelan, Jody E; Brum, Laura; Campino, Susana; Couto, Isabel; +3 more... Viveiros, Miguel; Clark, Taane G; Portugal, Isabel; (2020) Using genomics to understand the origin and dispersion of multidrug and extensively drug resistant tuberculosis in Portugal. Scientific reports, 10 (1). 2600-. ISSN 2045-2322 DOI: https://doi.org/10.1038/s41598-020-59558-3
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2019

Ajawatanawong, Pravech; Yanai, Hideki; Smittipat, Nat; Disratthakit, Areeya; Yamada, Norio; Miyahara, Reiko; Nedsuwan, Supalert; Imasanguan, Worarat; Kantipong, Pacharee; Chaiyasirinroje, Boonchai; +16 more... 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; (2019) A novel Ancestral Beijing sublineage of Mycobacterium tuberculosis suggests the transition site to Modern Beijing sublineages. Scientific reports, 9 (1). 13718-. ISSN 2045-2322 DOI: https://doi.org/10.1038/s41598-019-50078-3
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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; +10 more... 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; (2019) Whole genome sequencing of amplified Plasmodium knowlesi DNA from unprocessed blood reveals genetic exchange events between Malaysian Peninsular and Borneo subpopulations. Scientific reports, 9 (1). 9873-. ISSN 2045-2322 DOI: https://doi.org/10.1038/s41598-019-46398-z
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Costa, Sofia Santos; Sobkowiak, Benjamin; Parreira, Ricardo; Edgeworth, Jonathan D; Viveiros, Miguel; Clark, Taane G; Couto, Isabel; (2019) Genetic Diversity of norA, Coding for a Main Efflux Pump of Staphylococcus aureus. Frontiers in Genetics, 9 (JAN). 710-. ISSN 1664-8021 DOI: https://doi.org/10.3389/fgene.2018.00710
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Deelder, Wouter; Christakoudi, Sofia; Phelan, Jody; Benavente, Ernest Diez; Campino, Susana; McNerney, Ruth; Palla, Luigi; Clark, Taane G; (2019) Machine Learning Predicts Accurately Mycobacterium tuberculosis Drug Resistance From Whole Genome Sequencing Data. Frontiers in Genetics, 10 (SEP). 922-. DOI: https://doi.org/10.3389/fgene.2019.00922
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Diakité, Seidina AS; Traoré, Karim; Sanogo, Ibrahim; Clark, Taane G; Campino, Susana; Sangaré, Modibo; Dabitao, Djeneba; Dara, Antoine; Konaté, Drissa S; Doucouré, Fousseyni; +9 more... Cissé, Amadou; Keita, Bourama; Doumbouya, Mory; Guindo, Merepen A; Toure, Mahamoudou B; Sogoba, Nafomon; Doumbia, Seydou; Awandare, Gordon A; Diakité, Mahamadou; (2019) A comprehensive analysis of drug resistance molecular markers and Plasmodium falciparum genetic diversity in two malaria endemic sites in Mali. Malaria journal, 18 (1). 361-. ISSN 1475-2875 DOI: https://doi.org/10.1186/s12936-019-2986-5
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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; +8 more... 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; (2019) Association of Malaria Infection During Pregnancy With Head Circumference of Newborns in the Brazilian Amazon. JAMA network open, 2 (5). e193300-. ISSN 2574-3805 DOI: https://doi.org/10.1001/jamanetworkopen.2019.3300
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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; +11 more... 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; (2019) Discordant bioinformatic predictions of antimicrobial resistance from whole-genome sequencing data of bacterial isolates: An inter-laboratory study. BioRxiv. DOI: https://doi.org/10.1101/793885
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Grignard, Lynn; Mair, Catherine; Curry, Jonathan; Mahey, Laleta; Bastiaens, Guide JH; Tiono, Alfred B; Okebe, Joseph; Coulibaly, Sam A; Gonçalves, Bronner P; Affara, Muna; +11 more... 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; (2019) Bead-based assays to simultaneously detect multiple human inherited blood disorders associated with malaria. Malaria journal, 18 (1). 14-. ISSN 1475-2875 DOI: https://doi.org/10.1186/s12936-019-2648-7
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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; +2 more... Waddell, Simon J; Clark, Taane G; (2019) Whole genome sequencing of drug resistant Mycobacterium tuberculosis isolates from a high burden tuberculosis region of North West Pakistan. Scientific reports, 9 (1). 14996-. ISSN 2045-2322 DOI: https://doi.org/10.1038/s41598-019-51562-6
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Oppong, Yaa EA; Phelan, Jody; Perdigão, João; Machado, Diana; Miranda, Anabela; Portugal, Isabel; Viveiros, Miguel; Clark, Taane G; Hibberd, Martin L; (2019) Genome-wide analysis of Mycobacterium tuberculosis polymorphisms reveals lineage-specific associations with drug resistance. BMC genomics, 20 (1). 252-. ISSN 1471-2164 DOI: https://doi.org/10.1186/s12864-019-5615-3
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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; +10 more... 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; (2019) Mycobacterium tuberculosis whole genome sequencing provides insights into the Manila strain and drug-resistance mutations in the Philippines. Scientific reports, 9 (1). 9305-. ISSN 2045-2322 DOI: https://doi.org/10.1038/s41598-019-45566-5
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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; +2 more... Huggett, Jim F; Clark, Taane G; (2019) Integrating informatics tools and portable sequencing technology for rapid detection of resistance to anti-tuberculous drugs. Genome medicine, 11 (1). 41-. ISSN 1756-994X DOI: https://doi.org/10.1186/s13073-019-0650-x
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Ravenhall, M; (2019) A bioinformatic analysis of malaria host and pathogen genomics. PhD (research paper style) thesis, London School of Hygiene & Tropical Medicine. DOI: https://doi.org/10.17037/PUBS.04653632
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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; +9 more... Trimarsanto, Hidayat; Noviyanti, Rintis; Sriprawat, Kanlaya; Nosten, Francois; Campino, Susana; Clark, Taane G; Anstey, Nicholas M; Kwiatkowski, Dominic P; Price, Ric N; (2018) Genomic analysis of a pre-elimination Malaysian Plasmodium vivax population reveals selective pressures and changing transmission dynamics. Nature communications, 9 (1). 2585-. ISSN 2041-1723 DOI: https://doi.org/10.1038/s41467-018-04965-4
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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; +4 more... Mohareb, Fady; Baker, David A; Clark, Taane G; Campino, Susana; (2018) Global genetic diversity of var2csa in Plasmodium falciparum with implications for malaria in pregnancy and vaccine development. Scientific reports, 8 (1). 15429-. ISSN 2045-2322 DOI: https://doi.org/10.1038/s41598-018-33767-3
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Brynildsrud, Ola B; Pepperell, Caitlin S; Suffys, Philip; Grandjean, Louis; Monteserin, Johana; Debech, Nadia; Bohlin, Jon; Alfsnes, Kristian; Pettersson, John O-H; Kirkeleite, Ingerid; +20 more... 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; (2018) Global expansion of Mycobacterium tuberculosis lineage 4 shaped by colonial migration and local adaptation. SCIENCE ADVANCES, 4 (10). eaat5869-. ISSN 2375-2548 DOI: https://doi.org/10.1126/sciadv.aat5869
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Campino, Susana; Marin-Menendez, Alejandro; Kemp, Alison; Cross, Nadia; Drought, Laura; Otto, Thomas D; Benavente, Ernest Diez; Ravenhall, Matt; Schwach, Frank; Girling, Gareth; +8 more... Manske, Magnus; Theron, Michel; Gould, Kelda; Drury, Eleanor; Clark, Taane G; Kwiatkowski, Dominic P; Pance, Alena; Rayner, Julian C; (2018) A forward genetic screen reveals a primary role for Plasmodium falciparum Reticulocyte Binding Protein Homologue 2a and 2b in determining alternative erythrocyte invasion pathways. PLoS pathogens, 14 (11). e1007436-. ISSN 1553-7366 DOI: https://doi.org/10.1371/journal.ppat.1007436
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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; +41 more... 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; (2018) Author Correction: Genome-wide analysis of multi- and extensively drug-resistant Mycobacterium tuberculosis. Nature genetics, 50 (5). 764-. ISSN 1061-4036 DOI: https://doi.org/10.1038/s41588-018-0074-3 Full text not available from this repository.

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; +41 more... 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; (2018) Genome-wide analysis of multi- and extensively drug-resistant Mycobacterium tuberculosis. Nature genetics, 50 (2). pp. 307-316. ISSN 1061-4036 DOI: https://doi.org/10.1038/s41588-017-0029-0
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Cook, Sarah; Malyutina, Sofia; Kudryavtsev, Alexander V; Averina, Maria; Bobrova, Natalia; Boytsov, Sergey; Brage, Soren; Clark, Taane G; Diez Benavente, Ernest; Eggen, Anne Elise; +26 more... 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; (2018) 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. Wellcome open research, 3. 67-. ISSN 2398-502X DOI: https://doi.org/10.12688/wellcomeopenres.14619.3
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Cook, Sarah; Malyutina, Sofia; Kudryavtsev, Alexander V; Averina, Maria; Bobrova, Natalia; Boytsov, Sergey; Brage, Soren; Clark, Taane G; Diez Benavente, Ernest; Eggen, Anne Elise; +26 more... 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; (2018) 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. Wellcome Open Research, 3. 67-. DOI: https://doi.org/10.12688/wellcomeopenres.14619.3
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Cook, Sarah; Malyutina, Sofia; Kudryavtsev, Alexander; Averina, Maria; Bobrova, Natalia; Boytsov, Sergey; Brage, Soren; Clark, Taane; Diez Benavente, Ernest; Eggen, Anne Elise; +26 more... 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; (2018) 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. Wellcome Open Research. ISSN 2398-502X DOI: https://doi.org/10.12688/wellcomeopenres.14619.3
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Cook, Sarah; Malyutina, Sofia; Kudryavtsev, Alexander; Averina, Maria; Bobrova, Natalia; Boytsov, Sergey; Brage, Soren; Clark, Taane; Diez Benavente, Ernest; Eggen, Anne Elise; +26 more... 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; (2018) 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. Wellcome Open Research, 3. 67-67-. DOI: https://doi.org/10.12688/wellcomeopenres.14619.1
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Higgins, Matthew; Ravenhall, Matt; Ward, Daniel; Phelan, Jody; Ibrahim, Amy; Forrest, Matthew S; Clark, Taane G; Campino, Susana; (2018) PrimedRPA: primer design for recombinase polymerase amplification assays. Bioinformatics (Oxford, England), 35 (4). pp. 682-684. ISSN 1367-4803 DOI: https://doi.org/10.1093/bioinformatics/bty701
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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; +3 more... Kellam, Paul; Nokes, D James; Cotten, Matthew; (2018) Human Coronavirus NL63 Molecular Epidemiology and Evolutionary Patterns in Rural Coastal Kenya. The Journal of infectious diseases, 217 (11). pp. 1728-1739. ISSN 0022-1899 DOI: https://doi.org/10.1093/infdis/jiy098
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Leon, Lydia J; Doyle, Ronan; Diez-Benavente, Ernest; Clark, Taane G; Klein, Nigel; Stanier, Philip; Moore, Gudrun E; (2018) 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. Applied and environmental microbiology, 84 (14). ISSN 0099-2240 DOI: https://doi.org/10.1128/AEM.00483-18
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McNerney, Ruth; Zignol, Matteo; Clark, Taane G; (2018) Use of whole genome sequencing in surveillance of drug resistant tuberculosis. Expert review of anti-infective therapy, 16 (5). pp. 433-442. ISSN 1478-7210 DOI: https://doi.org/10.1080/14787210.2018.1472577 Full text not available from this repository.

Ndila, Carolyne M; Uyoga, Sophie; Macharia, Alexander W; Nyutu, Gideon; Peshu, Norbert; Ojal, John; Shebe, Mohammed; Awuondo, Kennedy O; Mturi, Neema; Tsofa, Benjamin; +15 more... 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; (2018) Human candidate gene polymorphisms and risk of severe malaria in children in Kilifi, Kenya: a case-control association study. The Lancet Haematology, 5 (8). e333-e345. ISSN 2352-3026 DOI: https://doi.org/10.1016/S2352-3026(18)30107-8
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Palittapongarnpim, Prasit; Ajawatanawong, Pravech; Viratyosin, Wasna; Smittipat, Nat; Disratthakit, Areeya; Mahasirimongkol, Surakameth; Yanai, Hideki; Yamada, Norio; Nedsuwan, Supalert; Imasanguan, Worarat; +13 more... 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; (2018) Evidence for Host-Bacterial Co-evolution via Genome Sequence Analysis of 480 Thai Mycobacterium tuberculosis Lineage 1 Isolates. Scientific reports, 8 (1). 11597-. ISSN 2045-2322 DOI: https://doi.org/10.1038/s41598-018-29986-3
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Perdigão, João; Silva, Carla; Diniz, Jaciara; Pereira, Catarina; Machado, Diana; Ramos, Jorge; Silva, Hugo; Abilleira, Fernanda; Brum, Clarice; Reis, Ana J; +28 more... 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; (2018) Clonal expansion across the seas as seen through CPLP-TB database: A joint effort in cataloguing Mycobacterium tuberculosis genetic diversity in Portuguese-speaking countries. Infection, genetics and evolution, 72. pp. 44-58. ISSN 1567-1348 DOI: https://doi.org/10.1016/j.meegid.2018.03.011
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Phelan, Jody; de Sessions, Paola Florez; Tientcheu, Leopold; Perdigao, Joao; Machado, Diana; Hasan, Rumina; Hasan, Zahra; Bergval, Indra L; Anthony, Richard; McNerney, Ruth; +6 more... Antonio, Martin; Portugal, Isabel; Viveiros, Miguel; Campino, Susana; Hibberd, Martin L; Clark, Taane G; (2018) Methylation in Mycobacterium tuberculosis is lineage specific with associated mutations present globally. Scientific reports, 8 (1). 160-. ISSN 2045-2322 DOI: https://doi.org/10.1038/s41598-017-18188-y
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Ravenhall, Matt; Campino, Susana; Sepúlveda, Nuno; Manjurano, Alphaxard; Nadjm, Behzad; Mtove, George; Wangai, Hannah; Maxwell, Caroline; Olomi, Raimos; Reyburn, Hugh; +4 more... Drakeley, Christopher J; Riley, Eleanor M; Clark, Taane G; MalariaGEN; (2018) Novel genetic polymorphisms associated with severe malaria and under selective pressure in North-eastern Tanzania. PLoS genetics, 14 (1). e1007172-. ISSN 1553-7390 DOI: https://doi.org/10.1371/journal.pgen.1007172
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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; +3 more... Parkhill, Julian; Crampin, Amelia C; Clark, Taane G; (2018) Identifying mixed Mycobacterium tuberculosis infections from whole genome sequence data. BMC genomics, 19 (1). 613-. ISSN 1471-2164 DOI: https://doi.org/10.1186/s12864-018-4988-z
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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; +3 more... Hibberd, Martin L; Campino, Susana; Clark, Taane G; (2017) A reference genome and methylome for the Plasmodium knowlesi A1-H.1 line. International journal for parasitology, 48 (3-4). pp. 191-196. ISSN 0020-7519 DOI: https://doi.org/10.1016/j.ijpara.2017.09.008
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Clarke, Geraldine M; Rockett, Kirk; Kivinen, Katja; Hubbart, Christina; Jeffreys, Anna E; Rowlands, Kate; Jallow, Muminatou; Conway, David J; Bojang, Kalifa A; Pinder, Margaret; +68 more... 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; (2017) Characterisation of the opposing effects of G6PD deficiency on cerebral malaria and severe malarial anaemia. eLife, 6. ISSN 2050-084X DOI: https://doi.org/10.7554/eLife.15085
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Dheda, Keertan; Gumbo, Tawanda; Maartens, Gary; Dooley, Kelly E; McNerney, Ruth; Murray, Megan; Furin, Jennifer; Nardell, Edward A; London, Leslie; Lessem, Erica; +32 more... 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; (2017) The epidemiology, pathogenesis, transmission, diagnosis, and management of multidrug-resistant, extensively drug-resistant, and incurable tuberculosis. The lancet Respiratory medicine, 5 (4). pp. 291-360. ISSN 2213-2600 DOI: https://doi.org/10.1016/S2213-2600(17)30079-6 Full text not available from this repository.

Dheda, Keertan; Limberis, Jason D; Pietersen, Elize; Phelan, Jody; Esmail, Aliasgar; Lesosky, Maia; Fennelly, Kevin P; Te Riele, Julian; Mastrapa, Barbara; Streicher, Elizabeth M; +13 more... 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; (2017) Outcomes, infectiousness, and transmission dynamics of patients with extensively drug-resistant tuberculosis and home-discharged patients with programmatically incurable tuberculosis: a prospective cohort study. The lancet Respiratory medicine, 5 (4). pp. 269-281. ISSN 2213-2600 DOI: https://doi.org/10.1016/S2213-2600(16)30433-7 Full text not available from this repository.

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; +4 more... Huggett, Jim; Clark, Taane G; Campino, Susana; Marinho, Claudio RF; (2017) G6PD deficiency alleles in a malaria-endemic region in the Western Brazilian Amazon. Malaria journal, 16 (1). 253-. ISSN 1475-2875 DOI: https://doi.org/10.1186/s12936-017-1889-6
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Gomes, Ana Rita; Ravenhall, Matt; Benavente, Ernest Diez; Talman, Arthur; Sutherland, Colin; Roper, Cally; Clark, Taane G; Campino, Susana; (2017) Genetic diversity of next generation antimalarial targets: A baseline for drug resistance surveillance programmes. International journal for parasitology Drugs and drug resistance, 7 (2). pp. 174-180. ISSN 2211-3207 DOI: https://doi.org/10.1016/j.ijpddr.2017.03.001
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Kanji, A; Hasan, R; Ali, A; Zaver, A; Zhang, Y; Imtiaz, K; Shi, W; Clark, TG; McNerney, R; Phelan, J; +3 more... Rao, S; Shafiq, S; Hasan, Z; (2017) Single nucleotide polymorphisms in efflux pumps genes in extensively drug resistant Mycobacterium tuberculosis isolates from Pakistan. Tuberculosis (Edinburgh, Scotland), 107. pp. 20-30. ISSN 1472-9792 DOI: https://doi.org/10.1016/j.tube.2017.07.012
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Kanji, Akbar; Hasan, Rumina; Ali, Asho; Zaver, Ambreen; Zhang, Ying; Imtiaz, Kehkashan; Shi, Wanliang; Clark, Taane G; McNerney, Ruth; Phelan, Jody; +3 more... Rao, Shoaib; Shafiq, Samreen; Hasan, Zahra; (2017) Single nucleotide polymorphisms in efflux pumps genes in extensively drug resistant Mycobacterium tuberculosis isolates from Pakistan. Tuberculosis (Edinburgh, Scotland), 107 (Supple). pp. 20-30. ISSN 1472-9792 DOI: https://doi.org/10.1016/j.tube.2017.07.012 Full text not available from this repository.

Last, AR; Pickering, H; Roberts, Ch; Coll, F; Phelan, J; Burr, SE; Cassama, E; Nabicassa, M; Seth-Smith, HMB; Hadfield, J; +7 more... Cutcliffe, LT; Clarke, IN; Mabey, DCW; Bailey, RL; Clark, TG; Thomson, NR; Holland, MJ; (2017) Population-based analysis of ocular Chlamydia trachomatis in trachoma-endemic West African communities identifies genomic markers of disease severity. BioRxiv. DOI: https://doi.org/10.1101/205336
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Nakatani, Yoshio; Opel-Reading, Helen K; Merker, Matthias; Machado, Diana; Andres, Sönke; Kumar, S Siva; Moradigaravand, Danesh; Coll, Francesc; Perdigão, João; Portugal, Isabel; +19 more... 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; (2017) Role of Alanine Racemase Mutations in Mycobacterium tuberculosis d-Cycloserine Resistance. Antimicrobial agents and chemotherapy, 61 (12). ISSN 0066-4804 DOI: https://doi.org/10.1128/AAC.01575-17
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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; (2017) Pyrazinamide resistance-conferring mutations in pncA and the transmission of multidrug resistant TB in Georgia. BMC infectious diseases, 17 (1). 491-. ISSN 1471-2334 DOI: https://doi.org/10.1186/s12879-017-2594-3
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Sepúlveda, Nuno; Manjurano, Alphaxard; Campino, Susana G; Lemnge, Martha; Lusingu, John; Olomi, Raimos; Rockett, Kirk A; Hubbart, Christina; Jeffreys, Anna; Rowlands, Kate; +4 more... Clark, Taane G; Riley, Eleanor M; Drakeley, Chris J; MalariaGEN Consortium; (2017) Malaria Host Candidate Genes Validated by Association With Current, Recent, and Historical Measures of Transmission Intensity. The Journal of infectious diseases, 216 (1). pp. 45-54. ISSN 0022-1899 DOI: https://doi.org/10.1093/infdis/jix250
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Sheen, Patricia; Requena, David; Gushiken, Eduardo; Gilman, Robert H; Antiparra, Ricardo; Lucero, Bryan; Lizárraga, Pilar; Cieza, Basilio; Roncal, Elisa; Grandjean, Louis; +5 more... Pain, Arnab; McNerney, Ruth; Clark, Taane G; Moore, David; Zimic, Mirko; (2017) A multiple genome analysis of Mycobacterium tuberculosis reveals specific novel genes and mutations associated with pyrazinamide resistance. BMC genomics, 18 (1). 769-. ISSN 1471-2164 DOI: https://doi.org/10.1186/s12864-017-4146-z
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Tosas Auguet, Olga; Stabler, Richard A; Betley, Jason; Preston, Mark D; Dhaliwal, Mandeep; Gaunt, Michael; Ioannou, Avgousta; Desai, Nergish; Karadag, Tacim; Batra, Rahul; +4 more... Otter, Jonathan A; Marbach, Helene; Clark, Taane G; Edgeworth, Jonathan D; (2017) Frequent Undetected Ward-Based Methicillin-Resistant Staphylococcus aureus Transmission Linked to Patient Sharing Between Hospitals. Clinical infectious diseases, 66 (6). pp. 840-848. ISSN 1058-4838 DOI: https://doi.org/10.1093/cid/cix901
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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; +7 more... Liu, Yaobao; Gao, Qi; Dowd, Simone; Cheng, Qin; Clark, Taane G; Price, Ric N; Auburn, Sarah; (2017) VivaxGEN: An open access platform for comparative analysis of short tandem repeat genotyping data in Plasmodium vivax populations. PLoS neglected tropical diseases, 11 (3). e0005465-. ISSN 1935-2727 DOI: https://doi.org/10.1371/journal.pntd.0005465
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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; +11 more... 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; (2017) Modest heterologous protection after Plasmodium falciparum sporozoite immunization: a double-blind randomized controlled clinical trial. BMC medicine, 15 (1). 168-. ISSN 1741-7015 DOI: https://doi.org/10.1186/s12916-017-0923-4
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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; +6 more... Clark, Taane G; Sutherland, Colin J; Barnwell, John W; Culleton, Richard; Cao, Jun; Pain, Arnab; (2016) Genome-scale comparison of expanded gene families in Plasmodium ovale wallikeri and Plasmodium ovale curtisi with Plasmodium malariae and with other Plasmodium species. International journal for parasitology, 46 (11). pp. 685-696. ISSN 0020-7519 DOI: https://doi.org/10.1016/j.ijpara.2016.05.009
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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; +4 more... Kwiatkowski, Dominic P; Alano, Pietro; Baker, David A; Clark, Taane G; (2016) Genomic variation in two gametocyte non-producing Plasmodium falciparum clonal lines. Malaria journal, 15 (1). 229-. ISSN 1475-2875 DOI: https://doi.org/10.1186/s12936-016-1254-1
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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; (2016) Genetic signatures of Mycobacterium tuberculosis Nonthaburi genotype revealed by whole genome analysis of isolates from tuberculous meningitis patients in Thailand. PeerJ, 4 (4). e1905-. ISSN 2167-8359 DOI: https://doi.org/10.7717/peerj.1905
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Kanji, Akbar; Hasan, Rumina; Zaver, Ambreen; Ali, Asho; Imtiaz, Kehkashan; Ashraf, Mussarat; Clark, Taane G; McNerney, Ruth; Shafiq, Samreen; Hasan, Zahra; (2016) Alternate efflux pump mechanism may contribute to drug resistance in extensively drug-resistant isolates of Mycobacterium tuberculosis. International journal of mycobacteriology, 5 Supp. S97-S98. ISSN 2212-5531 DOI: https://doi.org/10.1016/j.ijmyco.2016.09.064
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Kim, Jung-Yeon; Goo, Youn-Kyoung; Zo, Young-Gun; Ji, So-Young; Trimarsanto, Hidayat; To, Sheren; Clark, Taane G; Price, Ric N; Auburn, Sarah; (2016) Further Evidence of Increasing Diversity of Plasmodium vivax in the Republic of Korea in Recent Years. PloS one, 11 (3). e0151514-. ISSN 1932-6203 DOI: https://doi.org/10.1371/journal.pone.0151514
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McNerney, Ruth; Clark, Taane G; Campino, Susana; Rodrigues, Camilla; Dolinger, David; Smith, Liezel; Cabibbe, Andrea M; Dheda, Keertan; Schito, Marco; (2016) Removing the bottleneck in whole genome sequencing of Mycobacterium tuberculosis for rapid drug resistance analysis: a call to action. International journal of infectious diseases, 56. pp. 130-135. ISSN 1201-9712 DOI: https://doi.org/10.1016/j.ijid.2016.11.422
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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; +20 more... 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; (2016) Recombination in pe/ppe genes contributes to genetic variation in Mycobacterium tuberculosis lineages. BMC genomics, 17 (1). 151-. ISSN 1471-2164 DOI: https://doi.org/10.1186/s12864-016-2467-y
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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; +6 more... Ramsay, Andrew; Campino, Susana; Hibberd, Martin L; Pain, Arnab; Rigouts, Leen; Clark, Taane G; (2016) Mycobacterium tuberculosis whole genome sequencing and protein structure modelling provides insights into anti-tuberculosis drug resistance. BMC medicine, 14 (1). 31-. ISSN 1741-7015 DOI: https://doi.org/10.1186/s12916-016-0575-9
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Phelan, Jody; O'Sullivan, Denise M; Machado, Diana; Ramos, Jorge; Whale, Alexandra S; O'Grady, Justin; Dheda, Keertan; Campino, Susana; McNerney, Ruth; Viveiros, Miguel; +2 more... Huggett, Jim F; Clark, Taane G; (2016) The variability and reproducibility of whole genome sequencing technology for detecting resistance to anti-tuberculous drugs. Genome medicine, 8 (1). 132-. ISSN 1756-994X DOI: https://doi.org/10.1186/s13073-016-0385-x
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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; +5 more... Terlouw, Anja; Craig, Alister; Campino, Susana; Ocholla, Harold; Clark, Taane G; (2016) Characterizing the impact of sustained sulfadoxine/pyrimethamine use upon the Plasmodium falciparum population in Malawi. Malaria journal, 15 (1). 575-. ISSN 1475-2875 DOI: https://doi.org/10.1186/s12936-016-1634-6
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Refrégier, Guislaine; Abadia, Edgar; Matsumoto, Tomoshige; Ano, Hiromi; Takashima, Tetsuya; Tsuyuguchi, Izuo; Aktas, Elif; Cömert, Füsun; Gomgnimbou, Michel Kireopori; Panaiotov, Stefan; +6 more... Phelan, Jody; Coll, Francesc; McNerney, Ruth; Pain, Arnab; Clark, Taane G; Sola, Christophe; (2016) Turkish and Japanese Mycobacterium tuberculosis sublineages share a remote common ancestor. Infection, genetics and evolution, 45. pp. 461-473. ISSN 1567-1348 DOI: https://doi.org/10.1016/j.meegid.2016.10.009
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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; +10 more... Verboom, Theo; Ummels, Roy; Zhang, Huoming; Panigrahi, Aswini Kumar; McNerney, Ruth; Brosch, Roland; Clark, Taane G; Behr, Marcel A; Bitter, Wilbert; Pain, Arnab; (2015) Genomic expression catalogue of a global collection of BCG vaccine strains show evidence for highly diverged metabolic and cell-wall adaptations. Scientific reports, 5 (1). 15443-. ISSN 2045-2322 DOI: https://doi.org/10.1038/srep15443
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Ali, Asho; Hasan, Zahra; McNerney, Ruth; Mallard, Kim; Hill-Cawthorne, Grant; Coll, Francesc; Nair, Mridul; Pain, Arnab; Clark, Taane G; Hasan, Rumina; (2015) Whole genome sequencing based characterization of extensively drug-resistant Mycobacterium tuberculosis isolates from Pakistan. PloS one, 10 (2). e0117771-. ISSN 1932-6203 DOI: https://doi.org/10.1371/journal.pone.0117771
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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; +5 more... Clark, Taane G; Duraisingh, Manoj T; Conway, David J; Pain, Arnab; Singh, Balbir; (2015) Population genomic structure and adaptation in the zoonotic malaria parasite Plasmodium knowlesi. Proceedings of the National Academy of Sciences of the United States of America, 112 (42). pp. 13027-13032. ISSN 0027-8424 DOI: https://doi.org/10.1073/pnas.1509534112
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Coll, Francesc; McNerney, Ruth; Preston, Mark D; Guerra-Assunção, José Afonso; Warry, Andrew; Hill-Cawthorne, Grant; Mallard, Kim; Nair, Mridul; Miranda, Anabela; Alves, Adriana; +9 more... Perdigão, João; Viveiros, Miguel; Portugal, Isabel; Hasan, Zahra; Hasan, Rumina; Glynn, Judith R; Martin, Nigel; Pain, Arnab; Clark, Taane G; (2015) Rapid determination of anti-tuberculosis drug resistance from whole-genome sequences. Genome medicine, 7 (1). 51-. ISSN 1756-994X DOI: https://doi.org/10.1186/s13073-015-0164-0
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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; +6 more... Pain, Arnab; Clark, Taane G; Rastogi, Nalin; Unis, Gisela; Rossetti, Maria Lucia R; Suffys, Philip Noel; (2015) 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. Journal of clinical microbiology, 53 (12). pp. 3805-3811. ISSN 0095-1137 DOI: https://doi.org/10.1128/JCM.02012-15 Full text not available from this repository.

Getachew, Sisay; To, Sheren; Trimarsanto, Hidayat; Thriemer, Kamala; Clark, Taane G; Petros, Beyene; Aseffa, Abraham; Price, Ric N; Auburn, Sarah; (2015) Variation in Complexity of Infection and Transmission Stability between Neighbouring Populations of Plasmodium vivax in Southern Ethiopia. PloS one, 10 (10). e0140780-. ISSN 1932-6203 DOI: https://doi.org/10.1371/journal.pone.0140780
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Kanji, Akbar; Hasan, Zahra; Ali, Asho; McNerney, Ruth; Mallard, Kim; Coll, Francesc; Hill-Cawthorne, Grant; Nair, Mridul; Clark, Taane G; Zaver, Ambreen; +2 more... Jafri, Sana; Hasan, Rumina; (2015) Characterization of genomic variations in SNPs of PE_PGRS genes reveals deletions and insertions in extensively drug resistant (XDR) M. tuberculosis strains from Pakistan. International journal of mycobacteriology, 4 (1). pp. 73-79. ISSN 2212-5531 DOI: https://doi.org/10.1016/j.ijmyco.2014.11.049
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Manjurano, Alphaxard; Sepulveda, Nuno; Nadjm, Behzad; Mtove, George; Wangai, Hannah; Maxwell, Caroline; Olomi, Raimos; Reyburn, Hugh; Riley, Eleanor M; Drakeley, Christopher J; +2 more... Clark, Taane G; MalariaGEN Consortium; (2015) African glucose-6-phosphate dehydrogenase alleles associated with protection from severe malaria in heterozygous females in Tanzania. PLoS genetics, 11 (2). e1004960-. ISSN 1553-7390 DOI: https://doi.org/10.1371/journal.pgen.1004960
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Manjurano, Alphaxard; Sepúlveda, Nuno; Nadjm, Behzad; Mtove, George; Wangai, Hannah; Maxwell, Caroline; Olomi, Raimos; Reyburn, Hugh; Drakeley, Christopher J; Riley, Eleanor M; +2 more... Clark, Taane G; in Collaboration With MalariaGEN; (2015) USP38, FREM3, SDC1, DDC, and LOC727982 Gene Polymorphisms and Differential Susceptibility to Severe Malaria in Tanzania. The Journal of infectious diseases, 212 (7). pp. 1129-1139. ISSN 0022-1899 DOI: https://doi.org/10.1093/infdis/jiv192
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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; +3 more... Bancroft, Gregory J; Cuccui, Jon; Wren, Brendan W; (2015) Characterization of New Virulence Factors Involved in the Intracellular Growth and Survival of Burkholderia pseudomallei. Infection and immunity, 84 (3). pp. 701-710. ISSN 0019-9567 DOI: https://doi.org/10.1128/IAI.01102-15
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Noviyanti, Rintis; Coutrier, Farah; Utami, Retno AS; Trimarsanto, Hidayat; Tirta, Yusrifar K; Trianty, Leily; Kusuma, Andreas; Sutanto, Inge; Kosasih, Ayleen; Kusriastuti, Rita; +7 more... Hawley, William A; Laihad, Ferdinand; Lobo, Neil; Marfurt, Jutta; Clark, Taane G; Price, Ric N; Auburn, Sarah; (2015) Contrasting Transmission Dynamics of Co-endemic Plasmodium vivax and P. falciparum: Implications for Malaria Control and Elimination. PLoS neglected tropical diseases, 9 (5). e0003739-. ISSN 1935-2727 DOI: https://doi.org/10.1371/journal.pntd.0003739
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Phelan, Jody; Maitra, Arundhati; McNerney, Ruth; Nair, Mridul; Gupta, Antima; Coll, Francesc; Pain, Arnab; Bhakta, Sanjib; Clark, Taane G; (2015) The draft genome of Mycobacterium aurum, a potential model organism for investigating drugs against Mycobacterium tuberculosis and Mycobacterium leprae. International journal of mycobacteriology, 4 (3). pp. 207-216. ISSN 2212-5531 DOI: https://doi.org/10.1016/j.ijmyco.2015.05.001
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Roberts, Chrissy H; Franklin, Christopher S; Makalo, Pateh; Joof, Hassan; Sarr, Isatou; Mahdi, Olaimatu S; Sillah, Ansumana; Bah, Momodou; Payne, Felicity; Jeffreys, Anna E; +13 more... 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; (2015) Conjunctival fibrosis and the innate barriers to Chlamydia trachomatis intracellular infection: a genome wide association study. Scientific reports, 5 (1). 17447-. ISSN 2045-2322 DOI: https://doi.org/10.1038/srep17447
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Samad, Hanif; Coll, Francesc; Preston, Mark D; Ocholla, Harold; Fairhurst, Rick M; Clark, Taane G; (2015) Imputation-based population genetics analysis of Plasmodium falciparum malaria parasites. PLoS genetics, 11 (4). e1005131-. ISSN 1553-7390 DOI: https://doi.org/10.1371/journal.pgen.1005131
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Shelton, Jennifer MG; Corran, Patrick; Risley, Paul; Silva, Nilupa; Hubbart, Christina; Jeffreys, Anna; Rowlands, Kate; Craik, Rachel; Cornelius, Victoria; Hensmann, Meike; +48 more... 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; (2015) Genetic determinants of anti-malarial acquired immunity in a large multi-centre study. Malaria journal, 14 (1). 333-. ISSN 1475-2875 DOI: https://doi.org/10.1186/s12936-015-0833-x
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2014

Alsford, Sam; Currier, Rachel B; Guerra-Assunção, José Afonso; Clark, Taane G; Horn, David; (2014) Cathepsin-L can resist lysis by human serum in Trypanosoma brucei brucei. PLoS pathogens, 10 (5). e1004130-. ISSN 1553-7366 DOI: https://doi.org/10.1371/journal.ppat.1004130
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Bergval, Indra; Coll, Francesc; Schuitema, Anja; de Ronde, Hans; Mallard, Kim; Pain, Arnab; McNerney, Ruth; Clark, Taane G; Anthony, Richard M; (2014) 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. FEMS microbiology letters, 362 (2). pp. 1-7. ISSN 0378-1097 DOI: https://doi.org/10.1093/femsle/fnu037
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Coll, Francesc; McNerney, Ruth; Guerra-Assunção, José Afonso; Glynn, Judith R; Perdigão, João; Viveiros, Miguel; Portugal, Isabel; Pain, Arnab; Martin, Nigel; Clark, Taane G; (2014) A robust SNP barcode for typing Mycobacterium tuberculosis complex strains. Nature communications, 5 (1). 4812-. ISSN 2041-1723 DOI: https://doi.org/10.1038/ncomms5812
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Coll, Francesc; Preston, Mark; Guerra-Assunção, José Afonso; Hill-Cawthorn, Grant; Harris, David; Perdigão, João; Viveiros, Miguel; Portugal, Isabel; Drobniewski, Francis; Gagneux, Sebastien; +6 more... Glynn, Judith R; Pain, Arnab; Parkhill, Julian; McNerney, Ruth; Martin, Nigel; Clark, Taane G; (2014) PolyTB: a genomic variation map for Mycobacterium tuberculosis. Tuberculosis (Edinburgh, Scotland), 94 (3). pp. 346-354. ISSN 1472-9792 DOI: https://doi.org/10.1016/j.tube.2014.02.005
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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; +2 more... Bousema, Teun; Sutherland, Colin J; (2014) Directional selection at the pfmdr1, pfcrt, pfubp1, and pfap2mu loci of Plasmodium falciparum in Kenyan children treated with ACT. The Journal of infectious diseases, 210 (12). pp. 2001-2008. ISSN 0022-1899 DOI: https://doi.org/10.1093/infdis/jiu358
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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; (2014) Recombinations in staphylococcal cassette chromosome mec elements compromise the molecular detection of methicillin resistance in Staphylococcus aureus. PloS one, 9 (6). e101419-. ISSN 1932-6203 DOI: https://doi.org/10.1371/journal.pone.0101419
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Kafsack, BF; Rovira-Graells, N; Clark, TG; Bancells, C; Crowley, VM; Campino, SG; Williams, AE; Drought, LG; Kwiatkowski, DP; Baker, DA; +2 more... Cortés, A; Llinás, M; (2014) A transcriptional switch underlies commitment tosexual development in malaria parasites. Nature, 507 (7491). pp. 248-52. ISSN 0028-0836 DOI: https://doi.org/10.1038/nature12920
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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; +2 more... Cortés, Alfred; Llinás, Manuel; (2014) A transcriptional switch underlies commitment to sexual development in malaria parasites. Nature, 507 (7491). pp. 248-252. ISSN 0028-0836 DOI: https://doi.org/10.1038/nature12920 Full text not available from this repository.

Liu, Yaobao; Auburn, Sarah; Cao, Jun; Trimarsanto, Hidayat; Zhou, Huayun; Gray, Karen-Ann; Clark, Taane G; Price, Ric N; Cheng, Qin; Huang, Rui; +1 more... Gao, Qi; (2014) Genetic diversity and population structure of Plasmodium vivax in Central China. Malaria journal, 13 (1). 262-. ISSN 1475-2875 DOI: https://doi.org/10.1186/1475-2875-13-262
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Maiga, Bakary; Dolo, Amagana; Campino, Susana; Sepulveda, Nuno; Corran, Patrick; Rockett, Kirk A; Troye-Blomberg, Marita; Doumbo, Ogobara K; Clark, Taane G; (2014) Glucose-6-phosphate dehydrogenase polymorphisms and susceptibility to mild malaria in Dogon and Fulani, Mali. MALARIA JOURNAL, 13 (1). 270-. ISSN 1475-2875 DOI: https://doi.org/10.1186/1475-2875-13-270
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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; +2 more... Kwiatkowski, Dominic P; Conway, David J; (2014) Genome-wide analysis of selection on the malaria parasite Plasmodium falciparum in West African populations of differing infection endemicity. Molecular biology and evolution, 31 (6). pp. 1490-1499. ISSN 0737-4038 DOI: https://doi.org/10.1093/molbev/msu106
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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; +1 more... Wren, Brendan W; (2014) Genome-wide saturation mutagenesis of Burkholderia pseudomallei K96243 predicts essential genes and novel targets for antimicrobial development. mBio, 5 (1). e00926-e00913. ISSN 2150-7511 DOI: https://doi.org/10.1128/mBio.00926-13
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Naeem, Raeece; Hidayah, Lailatul; Preston, Mark D; Clark, Taane G; Pain, Arnab; (2014) SVAMP: sequence variation analysis, maps and phylogeny. Bioinformatics (Oxford, England), 30 (15). pp. 2227-2229. ISSN 1367-4803 DOI: https://doi.org/10.1093/bioinformatics/btu176
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Ocholla, Harold; Preston, Mark D; Mipando, Mwapatsa; Jensen, Anja TR; Campino, Susana; MacInnis, Bronwyn; Alcock, Daniel; Terlouw, Anja; Zongo, Issaka; Oudraogo, Jean-Bosco; +13 more... 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; (2014) Whole-genome scans provide evidence of adaptive evolution in Malawian Plasmodium falciparum isolates. The Journal of infectious diseases, 210 (12). pp. 1991-2000. ISSN 0022-1899 DOI: https://doi.org/10.1093/infdis/jiu349
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Perdigão, João; Silva, Hugo; Machado, Diana; Macedo, Rita; Maltez, Fernando; Silva, Carla; Jordao, Luisa; Couto, Isabel; Mallard, Kim; Coll, Francesc; +6 more... Hill-Cawthorne, Grant A; McNerney, Ruth; Pain, Arnab; Clark, Taane G; Viveiros, Miguel; Portugal, Isabel; (2014) Unraveling Mycobacterium tuberculosis genomic diversity and evolution in Lisbon, Portugal, a highly drug resistant setting. BMC genomics, 15 (1). 991-. ISSN 1471-2164 DOI: https://doi.org/10.1186/1471-2164-15-991
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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; +12 more... 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; (2014) A barcode of organellar genome polymorphisms identifies the geographic origin of Plasmodium falciparum strains. Nature communications, 5 (1). 4052-. ISSN 2041-1723 DOI: https://doi.org/10.1038/ncomms5052
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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; +35 more... 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; (2014) Independent emergence of artemisinin resistance mutations among Plasmodium falciparum in Southeast Asia. The Journal of infectious diseases, 211 (5). pp. 670-679. ISSN 0022-1899 DOI: https://doi.org/10.1093/infdis/jiu491 Full text not available from this repository.

2013

Auburn, Sarah; Marfurt, Jutta; Maslen, Gareth; Campino, Susana; Ruano Rubio, Valentin; Manske, Magnus; Machunter, Barbara; Kenangalem, Enny; Noviyanti, Rintis; Trianty, Leily; +12 more... 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; (2013) Effective preparation of Plasmodium vivax field isolates for high-throughput whole genome sequencing. PloS one, 8 (1). e53160-. ISSN 1932-6203 DOI: https://doi.org/10.1371/journal.pone.0053160
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Band, Gavin; Le, Quang Si; Jostins, Luke; Pirinen, Matti; Kivinen, Katja; Jallow, Muminatou; Sisay-Joof, Fatoumatta; Bojang, Kalifa; Pinder, Margaret; Sirugo, Giorgio; +25 more... 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; (2013) Imputation-based meta-analysis of severe malaria in three African populations. PLoS genetics, 9 (5). e1003509-. ISSN 1553-7390 DOI: https://doi.org/10.1371/journal.pgen.1003509
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Borrmann, Steffen; Straimer, Judith; Mwai, Leah; Abdi, Abdirahman; Rippert, Anja; Okombo, John; Muriithi, Steven; Sasi, Philip; Kortok, Moses Mosobo; Lowe, Brett; +10 more... Campino, Susana; Assefa, Samuel; Auburn, Sarah; Manske, Magnus; Maslen, Gareth; Peshu, Norbert; Kwiatkowski, Dominic P; Marsh, Kevin; Nzila, Alexis; Clark, Taane G; (2013) Genome-wide screen identifies new candidate genes associated with artemisinin susceptibility in Plasmodium falciparum in Kenya. SCIENTIFIC REPORTS, 3 (1). 3318-. ISSN 2045-2322 DOI: https://doi.org/10.1038/srep03318
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Clark, Taane G; Mallard, Kim; Coll, Francesc; Preston, Mark; Assefa, Samuel; Harris, David; Ogwang, Sam; Mumbowa, Francis; Kirenga, Bruce; O'Sullivan, Denise M; +8 more... Okwera, Alphonse; Eisenach, Kathleen D; Joloba, Moses; Bentley, Stephen D; Ellner, Jerrold J; Parkhill, Julian; Jones-López, Edward C; McNerney, Ruth; (2013) Elucidating emergence and transmission of multidrug-resistant tuberculosis in treatment experienced patients by whole genome sequencing. PloS one, 8 (12). e83012-. ISSN 1932-6203 DOI: https://doi.org/10.1371/journal.pone.0083012
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Kariuki, Symon M; Rockett, Kirk; Clark, Taane G; Reyburn, Hugh; Agbenyega, Tsiri; Taylor, Terrie E; Birbeck, Gretchen L; Williams, Thomas N; Newton, Charles RJC; (2013) The genetic risk of acute seizures in African children with falciparum malaria. Epilepsia, 54 (6). pp. 990-1001. ISSN 0013-9580 DOI: https://doi.org/10.1111/epi.12173
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Liu, Xuanyao; Ong, Rick Twee-Hee; Pillai, Esakimuthu Nisha; Elzein, Abier M; Small, Kerrin S; Clark, Taane G; Kwiatkowski, Dominic P; Teo, Yik-Ying; (2013) Detecting and characterizing genomic signatures of positive selection in global populations. American journal of human genetics, 92 (6). pp. 866-881. ISSN 0002-9297 DOI: https://doi.org/10.1016/j.ajhg.2013.04.021 Full text not available from this repository.

Maiga, B; Dolo, A; Touré, O; Dara, V; Tapily, A; Campino, S; Sepulveda, N; Corran, P; Rockett, K; Clark, TG; +2 more... Blomberg, M Troye; Doumbo, OK; (2013) Fc gamma receptor IIa-H131R polymorphism and malaria susceptibility in sympatric ethnic groups, Fulani and Dogon of Mali. Scandinavian journal of immunology, 79 (1). pp. 43-50. ISSN 0300-9475 DOI: https://doi.org/10.1111/sji.12122
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Maiga, Bakary; Dolo, Amagana; Touré, Ousmane; Dara, Victor; Tapily, Amadou; Campino, Susana; Sepulveda, Nuno; Risley, Paul; Silva, Nilupa; Corran, Patrick; +6 more... Rockett, Kirk A; Kwiatkowski, Dominic; MalariaGEN Consortium; Clark, Taane G; Troye-Blomberg, Marita; Doumbo, Ogobara K; (2013) Human candidate polymorphisms in sympatric ethnic groups differing in malaria susceptibility in Mali. PloS one, 8 (10). e75675-. ISSN 1932-6203 DOI: https://doi.org/10.1371/journal.pone.0075675
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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; +4 more... Kwiatkowski, Dominic P; Clark, Taane G; Greenwood, Brian M; Conway, David J; (2013) Changes in malaria parasite drug resistance in an endemic population over a 25-year period with resulting genomic evidence of selection. The Journal of infectious diseases, 209 (7). pp. 1126-1135. ISSN 0022-1899 DOI: https://doi.org/10.1093/infdis/jit618
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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; +9 more... Zongo, Issaka; Ouédraogo, Jean-Bosco; Djimde, Abdoulaye A; Doumbo, Ogobara K; Nosten, Francois; Fairhurst, Rick M; Conway, David J; Roper, Cally; Clark, Taane G; (2013) PlasmoView: a web-based resource to visualise global Plasmodium falciparum genomic variation. The Journal of infectious diseases, 209 (11). pp. 1808-1815. ISSN 0022-1899 DOI: https://doi.org/10.1093/infdis/jit812
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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; +29 more... 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; (2013) Genetic loci associated with delayed clearance of Plasmodium falciparum following artemisinin treatment in Southeast Asia. Proceedings of the National Academy of Sciences of the United States of America, 110 (1). pp. 240-245. ISSN 0027-8424 DOI: https://doi.org/10.1073/pnas.1211205110 Item availability may be restricted.
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2012

Auburn, Sarah; Campino, Susana; Miotto, Olivo; Djimde, Abdoulaye A; Zongo, Issaka; Manske, Magnus; Maslen, Gareth; Mangano, Valentina; Alcock, Daniel; MacInnis, Bronwyn; +5 more... Rockett, Kirk A; Clark, Taane G; Doumbo, Ogobara K; Ouédraogo, Jean Bosco; Kwiatkowski, Dominic P; (2012) Characterization of within-host Plasmodium falciparum diversity using next-generation sequence data. PloS one, 7 (2). e32891-. ISSN 1932-6203 DOI: https://doi.org/10.1371/journal.pone.0032891
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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; +2 more... Walzl, Gerhard; Dockrell, Hazel M; (2012) Distinct phases of blood gene expression pattern through tuberculosis treatment reflect modulation of the humoral immune response. The Journal of infectious diseases, 207 (1). pp. 18-29. ISSN 0022-1899 DOI: https://doi.org/10.1093/infdis/jis499 Full text not available from this repository.

Coll, Francesc; Mallard, Kim; Preston, Mark D; Bentley, Stephen; Parkhill, Julian; McNerney, Ruth; Martin, Nigel; Clark, Taane G; (2012) SpolPred: rapid and accurate prediction of Mycobacterium tuberculosis spoligotypes from short genomic sequences. Bioinformatics (Oxford, England), 28 (22). pp. 2991-2993. ISSN 1367-4803 DOI: https://doi.org/10.1093/bioinformatics/bts544
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Dunstan, SJ; Rockett, KA; Quyen, NTN; Teo, YY; Thai, CQ; Hang, NT; Jeffreys, A; Clark, TG; Small, KS; Simmons, CP; +7 more... Day, N; O'Riordan, SE; Kwiatkowski, DP; Farrar, J; Phu, NH; Hien, TT; MalariaGEN Consortium; (2012) Variation in human genes encoding adhesion and proinflammatory molecules are associated with severe malaria in the Vietnamese. Genes and immunity, 13 (6). pp. 503-508. ISSN 1466-4879 DOI: https://doi.org/10.1038/gene.2012.25 Full text not available from this repository.

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; +2 more... Rogers, William O; Kwiatkowski, Dominic P; (2012) Haplotype analyses of haemoglobin C and haemoglobin S and the dynamics of the evolutionary response to malaria in Kassena-Nankana District of Ghana. PloS one, 7 (4). e34565-. ISSN 1932-6203 DOI: https://doi.org/10.1371/journal.pone.0034565
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Lawley, Trevor D; Clare, Simon; Walker, Alan W; Stares, Mark D; Connor, Thomas R; Raisen, Claire; Goulding, David; Rad, Roland; Schreiber, Fernanda; Brandt, Cordelia; +7 more... Deakin, Laura J; Pickard, Derek J; Duncan, Sylvia H; Flint, Harry J; Clark, Taane G; Parkhill, Julian; Dougan, Gordon; (2012) Targeted restoration of the intestinal microbiota with a simple, defined bacteriotherapy resolves relapsing Clostridium difficile disease in mice. PLoS pathogens, 8 (10). e1002995-. ISSN 1553-7366 DOI: https://doi.org/10.1371/journal.ppat.1002995
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Manjurano, Alphaxard; Clark, Taane G; Nadjm, Behzad; Mtove, George; Wangai, Hannah; Sepulveda, Nuno; Campino, Susana G; Maxwell, Caroline; Olomi, Raimos; Rockett, Kirk R; +5 more... Jeffreys, Anna; MalariaGen Consortium; Riley, Eleanor M; Reyburn, Hugh; Drakeley, Christopher; (2012) Candidate human genetic polymorphisms and severe malaria in a Tanzanian population. PloS one, 7 (10). e47463-. ISSN 1932-6203 DOI: https://doi.org/10.1371/journal.pone.0047463
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Manske, Magnus; Miotto, Olivo; Campino, Susana; Auburn, Sarah; Almagro-Garcia, Jacob; Maslen, Gareth; O'Brien, Jack; Djimde, Abdoulaye; Doumbo, Ogobara; Zongo, Issaka; +46 more... 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; (2012) Analysis of Plasmodium falciparum diversity in natural infections by deep sequencing. Nature, 487 (7407). pp. 375-379. ISSN 0028-0836 DOI: https://doi.org/10.1038/nature11174
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Preston, Mark D; Manske, Magnus; Horner, Neil; Assefa, Samuel; Campino, Susana; Auburn, Sarah; Zongo, Issaka; Ouedraogo, Jean-Bosco; Nosten, Francois; Anderson, Tim; +1 more... Clark, Taane G; (2012) VarB: a variation browsing and analysis tool for variants derived from next-generation sequencing data. Bioinformatics (Oxford, England), 28 (22). pp. 2983-2985. ISSN 1367-4803 DOI: https://doi.org/10.1093/bioinformatics/bts557
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Smith, Miriam; Campino, Susana; Gu, Yong; Clark, Taane G; Otto, Thomas D; Maslen, Gareth; Manske, Magnus; Imwong, Mallika; Dondorp, Arjen M; Kwiatkowski, Dominic P; +2 more... Quail, Michael A; Swerdlow, Harold; (2012) An In-Solution Hybridisation Method for the Isolation of Pathogen DNA from Human DNA-rich Clinical Samples for Analysis by NGS. The Open Genomics Journal, 5 (1). pp. 18-29. DOI: https://doi.org/10.2174/1875693X01205010018
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Toure, Ousmane; Konate, Salimata; Sissoko, Sibiri; Niangaly, Amadou; Barry, Abdoulaye; Sall, Abdourahmane H; Diarra, Elisabeth; Poudiougou, Belco; Sepulveda, Nuno; Campino, Susana; +5 more... Rockett, Kirk A; Clark, Taane G; Thera, Mahamadou A; Doumbo, Ogobara; Collaboration with The MalariaGEN Consortium; (2012) Candidate polymorphisms and severe malaria in a Malian population. PloS one, 7 (9). e43987-. ISSN 1932-6203 DOI: https://doi.org/10.1371/journal.pone.0043987
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da Silva Santos, Simone; Clark, Taane G; Campino, Susana; Suarez-Mutis, Martha Cecília; Rockett, Kirk A; Kwiatkowski, Dominic P; Fernandes, Octavio; (2012) Investigation of host candidate malaria-associated risk/protective SNPs in a Brazilian Amazonian population. PloS one, 7 (5). e36692-. ISSN 1932-6203 DOI: https://doi.org/10.1371/journal.pone.0036692
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2011

Auburn, Sarah; Campino, Susana; Clark, Taane G; Djimde, Abdoulaye A; Zongo, Issaka; Pinches, Robert; Manske, Magnus; Mangano, Valentina; Alcock, Daniel; Anastasi, Elisa; +8 more... Maslen, Gareth; Macinnis, Bronwyn; Rockett, Kirk; Modiano, David; Newbold, Christopher I; Doumbo, Ogobara K; Ouédraogo, Jean Bosco; Kwiatkowski, Dominic P; (2011) An effective method to purify Plasmodium falciparum DNA directly from clinical blood samples for whole genome high-throughput sequencing. PLOS ONE, 6 (7). e22213-. ISSN 1932-6203 DOI: https://doi.org/10.1371/journal.pone.0022213
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Campino, Susana; Auburn, Sarah; Kivinen, Katja; Zongo, Issaka; Ouedraogo, Jean-Bosco; Mangano, Valentina; Djimde, Abdoulaye; Doumbo, Ogobara K; Kiara, Steven M; Nzila, Alexis; +21 more... 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; (2011) Population genetic analysis of Plasmodium falciparum parasites using a customized Illumina GoldenGate genotyping assay. PloS one, 6 (6). e20251-. ISSN 1932-6203 DOI: https://doi.org/10.1371/journal.pone.0020251
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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; +10 more... Quail, Mike A; Rijal, Suman; Sanders, Mandy; Schönian, Gabriele; Stark, Olivia; Sundar, Shyam; Vanaerschot, Manu; Hertz-Fowler, Christiane; Dujardin, Jean-Claude; Berriman, Matthew; (2011) Whole genome sequencing of multiple Leishmania donovani clinical isolates provides insights into population structure and mechanisms of drug resistance. Genome research, 21 (12). pp. 2143-2156. ISSN 1088-9051 DOI: https://doi.org/10.1101/gr.123430.111 Full text not available from this repository.

Kariuki, SM; Rockett, K; Clark, TG; Reyburn, H; Agbenyega, T; Taylor, TE; Williams, TN; Newton, CR; (2011) HUMAN GENETIC POLYMORPHISMS AND THE RISK OF MALARIA-ASSOCIATED SEIZURES IN AFRICAN POPULATIONS. [Conference or Workshop Item] https://researchonline.lshtm.ac.uk/id/eprint/18747 Full text not available from this repository.

Manjurano, Alphaxard; Okell, Lucy; Lukindo, Tedson; Reyburn, Hugh; Olomi, Raimos; Roper, Cally; Clark, Taane G; Joseph, Sarah; Riley, Eleanor M; Drakeley, Chris; (2011) Association of sub-microscopic malaria parasite carriage with transmission intensity in north-eastern Tanzania. Malaria journal, 10 (1). 370-. ISSN 1475-2875 DOI: https://doi.org/10.1186/1475-2875-10-370
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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; +5 more... Quail, Michael A; Chiodini, Peter L; Kwiatkowski, Dominic P; Clark, Taane G; Sutherland, Colin J; (2011) Drug-resistant genotypes and multi-clonality in Plasmodium falciparum analysed by direct genome sequencing from peripheral blood of malaria patients. PloS one, 6 (8). e23204-. ISSN 1932-6203 DOI: https://doi.org/10.1371/journal.pone.0023204
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2010

Auburn, Sarah; Fry, Andrew E; Clark, Taane G; Campino, Susana; Diakite, Mahamadou; Green, Angela; Richardson, Anna; Jallow, Muminatou; Sisay-Joof, Fatou; Pinder, Margaret; +5 more... Molyneux, Malcolm E; Taylor, Terrie E; Haldar, Kasturi; Rockett, Kirk A; Kwiatkowski, Dominic P; (2010) Further evidence supporting a role for gs signal transduction in severe malaria pathogenesis. PloS one, 5 (4). e10017-. ISSN 1932-6203 DOI: https://doi.org/10.1371/journal.pone.0010017
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Carroll, Robert P; Segundo, David San; Hollowood, Kevin; Marafioti, Teresa; Clark, Taane G; Harden, Paul N; Wood, Kathryn J; (2010) Immune phenotype predicts risk for posttransplantation squamous cell carcinoma. Journal of the American Society of Nephrology, 21 (4). pp. 713-722. ISSN 1046-6673 DOI: https://doi.org/10.1681/ASN.2009060669 Full text not available from this repository.

Clark, Taane G; Campino, Susana G; Anastasi, Elisa; Auburn, Sarah; Teo, Yik Y; Small, Kerrin; Rockett, Kirk A; Kwiatkowski, Dominic P; Holmes, Christopher C; (2010) A Bayesian approach using covariance of single nucleotide polymorphism data to detect differences in linkage disequilibrium patterns between groups of individuals. Bioinformatics (Oxford, England), 26 (16). pp. 1999-2003. ISSN 1367-4803 DOI: https://doi.org/10.1093/bioinformatics/btq327 Full text not available from this repository.

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; +5 more... Deloukas, Panos; Dermitzakis, Emmanouil T; Tavaré, Simon; Moore, Gudrun E; Dunham, Ian; (2010) High-throughput analysis of candidate imprinted genes and allele-specific gene expression in the human term placenta. BMC genetics, 11 (1). 25-. ISSN 1471-2156 DOI: https://doi.org/10.1186/1471-2156-11-25
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Lawley, Trevor D; Clare, Simon; Deakin, Laura J; Goulding, David; Yen, Jennifer L; Raisen, Claire; Brandt, Cordelia; Lovell, Jon; Cooke, Fiona; Clark, Taane G; +1 more... Dougan, Gordon; (2010) Use of purified Clostridium difficile spores to facilitate evaluation of health care disinfection regimens. Applied and environmental microbiology, 76 (20). pp. 6895-6900. ISSN 0099-2240 DOI: https://doi.org/10.1128/AEM.00718-10 Full text not available from this repository.

Sambo, Maria Rosário; Trovoada, Maria Jesus; Benchimol, Carla; Quinhentos, Vatúsia; Gonçalves, Lígia; Velosa, Rute; Marques, Maria Isabel; Sepúlveda, Nuno; Clark, Taane G; Mustafa, Stefan; +3 more... Wagner, Oswald; Coutinho, António; Penha-Gonçalves, Carlos; (2010) Transforming growth factor beta 2 and heme oxygenase 1 genes are risk factors for the cerebral malaria syndrome in Angolan children. PloS one, 5 (6). e11141-. ISSN 1932-6203 DOI: https://doi.org/10.1371/journal.pone.0011141
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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; +2 more... Monaco, Anthony P; International Molecular Genetic Study of Autism Consortium (IMGS; (2010) Polymorphisms in leucine-rich repeat genes are associated with autism spectrum disorder susceptibility in populations of European ancestry. Molecular autism, 1 (1). 7-. ISSN 2040-2392 DOI: https://doi.org/10.1186/2040-2392-1-7
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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; +1 more... Clark, Taane G; (2009) SnoopCGH: software for visualizing comparative genomic hybridization data. Bioinformatics (Oxford, England), 25 (20). pp. 2732-2733. ISSN 1367-4803 DOI: https://doi.org/10.1093/bioinformatics/btp488
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Campino, Susana; Forton, Julian; Auburn, Sarah; Fry, Andrew; Diakite, Mahamadou; Richardson, Anna; Hull, Jeremy; Jallow, Muminatou; Sisay-Joof, Fatou; Pinder, Margaret; +5 more... Molyneux, Malcolm E; Taylor, Terrie E; Rockett, Kirk; Clark, Taane G; Kwiatkowski, Dominic P; (2009) TLR9 polymorphisms in African populations: no association with severe malaria, but evidence of cis-variants acting on gene expression. Malaria journal, 8 (1). 44-. ISSN 1475-2875 DOI: https://doi.org/10.1186/1475-2875-8-44
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Clark, Taane G; Diakite, Mahamadou; Auburn, Sarah; Campino, Susana; Fry, Andrew E; Green, Angela; Richardson, Anna; Small, Kerrin; Teo, Yik Y; Wilson, Jonathan; +11 more... 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; (2009) Tumor necrosis factor and lymphotoxin-alpha polymorphisms and severe malaria in African populations. The Journal of infectious diseases, 199 (4). pp. 569-575. ISSN 0022-1899 DOI: https://doi.org/10.1086/596320 Full text not available from this repository.

Clark, Taane G; Fry, Andrew E; Auburn, Sarah; Campino, Susana; Diakite, Mahamadou; Green, Angela; Richardson, Anna; Teo, Yik Y; Small, Kerrin; Wilson, Jonathan; +6 more... Jallow, Muminatou; Sisay-Joof, Fatou; Pinder, Margaret; Sabeti, Pardis; Kwiatkowski, Dominic P; Rockett, Kirk A; (2009) Allelic heterogeneity of G6PD deficiency in West Africa and severe malaria susceptibility. European journal of human genetics, 17 (8). pp. 1080-1085. ISSN 1018-4813 DOI: https://doi.org/10.1038/ejhg.2009.8 Full text not available from this repository.

Diakite, Mahamadou; Clark, Taane G; Auburn, Sarah; Campino, Susana; Fry, Andrew E; Green, Angela; Morris, Andrew P; Richardson, Anna; Jallow, Muminatou; Sisay-Joof, Fatou; +3 more... Pinder, Margaret; Kwiatkowski, Dominic P; Rockett, Kirk A; (2009) 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. Human genetics, 125 (1). pp. 105-109. ISSN 0340-6717 DOI: https://doi.org/10.1007/s00439-008-0597-2 Full text not available from this repository.

Fry, Andrew E; Ghansa, Anita; Small, Kerrin S; Palma, Alejandro; Auburn, Sarah; Diakite, Mahamadou; Green, Angela; Campino, Susana; Teo, Yik Y; Clark, Taane G; +18 more... 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; (2009) Positive selection of a CD36 nonsense variant in sub-Saharan Africa, but no association with severe malaria phenotypes. Human molecular genetics, 18 (14). pp. 2683-2692. ISSN 0964-6906 DOI: https://doi.org/10.1093/hmg/ddp192
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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; +73 more... 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; (2009) Genome-wide and fine-resolution association analysis of malaria in West Africa. Nature genetics, 41 (6). pp. 657-665. ISSN 1061-4036 DOI: https://doi.org/10.1038/ng.388 Full text not available from this repository.

Mangano, Valentina D; Clark, Taane G; Auburn, Sarah; Campino, Susana; Diakite, Mahamadou; Fry, Andrew E; Green, Angela; Richardson, Anna; Jallow, Muminatou; Sisay-Joof, Fatou; +11 more... 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; (2009) Lack of association of interferon regulatory factor 1 with severe malaria in affected child-parental trio studies across three African populations. PloS one, 4 (1). e4206-. ISSN 1932-6203 DOI: https://doi.org/10.1371/journal.pone.0004206
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Sousa, Inês; Clark, Taane G; Toma, Claudio; Kobayashi, Kazuhiro; Choma, Maja; Holt, Richard; Sykes, Nuala H; Lamb, Janine A; Bailey, Anthony J; Battaglia, Agatino; +3 more... Maestrini, Elena; Monaco, Anthony P; International Molecular Genetic Study of Autism Consortium (IMGS; (2009) MET and autism susceptibility: family and case-control studies. European journal of human genetics, 17 (6). pp. 749-758. ISSN 1018-4813 DOI: https://doi.org/10.1038/ejhg.2008.215 Full text not available from this repository.

Teo, Yik Y; Fry, Andrew E; Bhattacharya, Kanishka; Small, Kerrin S; Kwiatkowski, Dominic P; Clark, Taane G; (2009) Genome-wide comparisons of variation in linkage disequilibrium. Genome research, 19 (10). pp. 1849-1860. ISSN 1088-9051 DOI: https://doi.org/10.1101/gr.092189.109 Full text not available from this repository.

Teo, Yik Y; Fry, Andrew E; Sanjoaquin, Miguel A; Pederson, Bonnie; Small, Kerrin S; Rockett, Kirk A; Kwiatkowski, Dominic P; Clark, Taane G; (2009) Assessing genuine parents-offspring trios for genetic association studies. Human heredity, 67 (1). pp. 26-37. ISSN 0001-5652 DOI: https://doi.org/10.1159/000164396 Full text not available from this repository.

Teo, Yik Y; Small, Kerrin S; Fry, Andrew E; Wu, Yumeng; Kwiatkowski, Dominic P; Clark, Taane G; (2009) Power consequences of linkage disequilibrium variation between populations. Genetic epidemiology, 33 (2). pp. 128-135. ISSN 0741-0395 DOI: https://doi.org/10.1002/gepi.20366 Full text not available from this repository.

2008

Campino, Susana; Forton, Julian; Raj, Srilakshmi; Mohr, Bert; Auburn, Sarah; Fry, Andrew; Mangano, Valentina D; Vandiedonck, Claire; Richardson, Anna; Rockett, Kirk; +2 more... Clark, Taane G; Kwiatkowski, Dominic P; (2008) Validating discovered Cis-acting regulatory genetic variants: application of an allele specific expression approach to HapMap populations. PloS one, 3 (12). e4105-. ISSN 1932-6203 DOI: https://doi.org/10.1371/journal.pone.0004105
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Clark, Taane G; De Iorio, Maria; Griffths, Robert C; (2008) An Evolutionary Algorithm to Find Associations in Dense Genetic Maps. Ieee Transactions on Evolutionary Computation, 12 (3). pp. 297-306. ISSN 1089-778X DOI: https://doi.org/10.1109/tevc.2007.900984 Full text not available from this repository.

Hoggart, Clive J; Clark, Taane G; De Iorio, Maria; Whittaker, John C; Balding, David J; (2008) Genome-wide significance for dense SNP and resequencing data. Genetic epidemiology, 32 (2). pp. 179-185. ISSN 0741-0395 DOI: https://doi.org/10.1002/gepi.20292 Full text not available from this repository.

Mangano, VD; Luoni, G; Rockett, KA; Sirima, BS; Konaté, A; Forton, J; Clark, TG; Bancone, G; Sadighi Akha, E; Kwiatkowski, DP; +1 more... Modiano, D; (2008) Interferon regulatory factor-1 polymorphisms are associated with the control of Plasmodium falciparum infection. Genes and immunity, 9 (2). pp. 122-129. ISSN 1466-4879 DOI: https://doi.org/10.1038/sj.gene.6364456 Full text not available from this repository.

Pain, A; Böhme, U; Berry, AE; Mungall, K; Finn, RD; Jackson, AP; Mourier, T; Mistry, J; Pasini, EM; Aslett, MA; +44 more... 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; (2008) The genome of the simian and human malaria parasite Plasmodium knowlesi. Nature, 455 (7214). pp. 799-803. ISSN 0028-0836 DOI: https://doi.org/10.1038/nature07306 Full text not available from this repository.

Teo, YY; Small, KS; Clark, TG; Kwiatkowski, DP; (2008) Perturbation analysis: a simple method for filtering SNPs with erroneous genotyping in genome-wide association studies. Annals of human genetics, 72 (Pt 3). pp. 368-374. ISSN 0003-4800 DOI: https://doi.org/10.1111/j.1469-1809.2007.00422.x Full text not available from this repository.

2007

Clark, Taane G; Andrew, Toby; Cooper, Gregory M; Margulies, Elliott H; Mullikin, James C; Balding, David J; (2007) Functional constraint and small insertions and deletions in the ENCODE regions of the human genome. Genome biology, 8 (9). R180-. ISSN 1465-6906 DOI: https://doi.org/10.1186/gb-2007-8-9-r180
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Clark, Taane G; De Iorio, Maria; Griffiths, Robert C; (2007) Bayesian logistic regression using a perfect phylogeny. Biostatistics (Oxford, England), 8 (1). pp. 32-52. ISSN 1465-4644 DOI: https://doi.org/10.1093/biostatistics/kxj030 Full text not available from this repository.

Clark, Taane G; Stewart, Moira; Rye, Tzyvia; Smyth, John F; Gourley, Charlie; (2007) Validation of a new prognostic index for advanced epithelial ovarian cancer: results from its application to a UK-based cohort. Journal of clinical oncology, 25 (35). pp. 5669-5670. ISSN 0732-183X DOI: https://doi.org/10.1200/JCO.2007.14.2976 Full text not available from this repository.

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; +309 more... 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; (2007) Identification and analysis of functional elements in 1% of the human genome by the ENCODE pilot project. Nature, 447 (7146). pp. 799-816. ISSN 0028-0836 DOI: https://doi.org/10.1038/nature05874 Full text not available from this repository.

Hoggart, Clive J; Chadeau-Hyam, Marc; Clark, Taane G; Lampariello, Riccardo; Whittaker, John C; De Iorio, Maria; Balding, David J; (2007) Sequence-level population simulations over large genomic regions. Genetics, 177 (3). pp. 1725-1731. ISSN 0016-6731 DOI: https://doi.org/10.1534/genetics.106.069088 Full text not available from this repository.

Keays, David A; Clark, Taane G; Campbell, Thomas G; Broxholme, John; Valdar, William; (2007) Estimating the number of coding mutations in genotypic and phenotypic driven N-ethyl-N-nitrosourea (ENU) screens: revisited. Mammalian genome, 18 (2). pp. 123-124. ISSN 0938-8990 DOI: https://doi.org/10.1007/s00335-006-0065-z Full text not available from this repository.

Munafò, Marcus R; Zetteler, Jessica I; Clark, Taane G; (2007) Personality and smoking status: a meta-analysis. Nicotine & tobacco research, 9 (3). pp. 405-413. ISSN 1462-2203 DOI: https://doi.org/10.1080/14622200701188851 Full text not available from this repository.

Teo, Yik Y; Fry, Andrew E; Clark, Taane G; Tai, ES; Seielstad, Mark; (2007) On the usage of HWE for identifying genotyping errors. Annals of human genetics, 71 (Pt 5). pp. 701-703. ISSN 0003-4800 DOI: https://doi.org/10.1111/j.1469-1809.2007.00356.x Full text not available from this repository.

Teo, Yik Y; Inouye, Michael; Small, Kerrin S; Gwilliam, Rhian; Deloukas, Panagiotis; Kwiatkowski, Dominic P; Clark, Taane G; (2007) A genotype calling algorithm for the Illumina BeadArray platform. Bioinformatics (Oxford, England), 23 (20). pp. 2741-2746. ISSN 1367-4803 DOI: https://doi.org/10.1093/bioinformatics/btm443 Full text not available from this repository.

2006

Bhatia, M; Howard, SC; Clark, TG; Neale, R; Qizilbash, N; Murphy, MFG; Rothwell, PM; (2006) Apolipoproteins as predictors of ischaemic stroke in patients with a previous transient ischaemic attack. Cerebrovascular diseases (Basel, Switzerland), 21 (5-6). pp. 323-328. ISSN 1015-9770 DOI: https://doi.org/10.1159/000091537 Full text not available from this repository.

Clark, Taane G; Murphy, Michael FG; Hey, Kate; Drury, Mark; Cheng, KK; Aveyard, Paul; (2006) Does smoking influence survival in cancer patients through effects on respiratory and vascular disease? European journal of cancer prevention, 15 (1). pp. 87-90. ISSN 0959-8278 DOI: https://doi.org/10.1097/01.cej.0000186634.81753.45 Full text not available from this repository.

Keays, David A; Clark, Taane G; Flint, Jonathan; (2006) Estimating the number of coding mutations in genotypic- and phenotypic-driven N-ethyl-N-nitrosourea (ENU) screens. Mammalian genome, 17 (3). pp. 230-238. ISSN 0938-8990 DOI: https://doi.org/10.1007/s00335-005-0101-4 Full text not available from this repository.

Munafò, MR; Thiselton, DL; Clark, TG; Flint, J; (2006) Association of the NRG1 gene and schizophrenia: a meta-analysis. Molecular psychiatry, 11 (6). pp. 539-546. ISSN 1359-4184 DOI: https://doi.org/10.1038/sj.mp.4001817 Full text not available from this repository.

Munafò, Marcus R; Clark, Taane G; Roberts, Kate H; Johnstone, Elaine C; (2006) Neuroticism mediates the association of the serotonin transporter gene with lifetime major depression. Neuropsychobiology, 53 (1). pp. 1-8. ISSN 0302-282X DOI: https://doi.org/10.1159/000089915 Full text not available from this repository.

2005

Clark, Taane G; De Iorio, Maria; Griffiths, Robert C; Farrall, Martin; (2005) Finding associations in dense genetic maps: a genetic algorithm approach. Human heredity, 60 (2). pp. 97-108. ISSN 0001-5652 DOI: https://doi.org/10.1159/000088845 Full text not available from this repository.

Munafò, MR; Bowes, L; Clark, TG; Flint, J; (2005) Lack of association of the COMT (Val158/108 Met) gene and schizophrenia: a meta-analysis of case-control studies. Molecular psychiatry, 10 (8). pp. 765-770. ISSN 1359-4184 DOI: https://doi.org/10.1038/sj.mp.4001664 Full text not available from this repository.

Munafò, MR; Clark, T; Flint, J; (2005) Does measurement instrument moderate the association between the serotonin transporter gene and anxiety-related personality traits? A meta-analysis. Molecular psychiatry, 10 (4). pp. 415-419. ISSN 1359-4184 DOI: https://doi.org/10.1038/sj.mp.4001627 Full text not available from this repository.

Zetteler, Jessica I; Clark, Taane G; Johnstone, Elaine C; Munafò, Marcus R; (2005) Association of the dopamine-β-hydroxylase gene with nicotine dependence: No evidence for mediation by personality. Personality and individual differences, 39 (6). pp. 1113-1122. ISSN 0191-8869 DOI: https://doi.org/10.1016/j.paid.2005.03.021 Full text not available from this repository.

2004

Munafò, MR; Clark, TG; Flint, J; (2004) Are there sex differences in the association between the 5HTT gene and neuroticism? A meta-analysis. Personality and individual differences, 37 (3). pp. 621-626. ISSN 0191-8869 DOI: https://doi.org/10.1016/j.paid.2003.09.031 Full text not available from this repository.

Munafò, Marcus R; Clark, Taane G; Flint, Jonathan; (2004) Assessing publication bias in genetic association studies: evidence from a recent meta-analysis. Psychiatry research, 129 (1). pp. 39-44. ISSN 0165-1781 DOI: https://doi.org/10.1016/j.psychres.2004.06.011 Full text not available from this repository.

Munafò, Marcus; Clark, Taane; Johnstone, Elaine; Murphy, Michael; Walton, Robert; (2004) The genetic basis for smoking behavior: a systematic review and meta-analysis. Nicotine & tobacco research, 6 (4). pp. 583-597. ISSN 1462-2203 DOI: https://doi.org/10.1080/14622200410001734030 Full text not available from this repository.

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; (2004) Fibrinogen concentration and risk of ischemic stroke and acute coronary events in 5113 patients with transient ischemic attack and minor ischemic stroke. Stroke; a journal of cerebral circulation, 35 (10). pp. 2300-2305. ISSN 0039-2499 DOI: https://doi.org/10.1161/01.STR.0000141701.36371.d1 Full text not available from this repository.

Whitlock, G; Norton, R; Clark, T; Jackson, R; MacMahon, S; (2004) Motor vehicle driver injury and marital status: a cohort study with prospective and retrospective driver injuries. Injury prevention, 10 (1). pp. 33-36. ISSN 1353-8047 DOI: https://doi.org/10.1136/ip.2003.003020 Full text not available from this repository.

2003

Bradburn, MJ; Clark, TG; Love, SB; Altman, DG; (2003) Survival analysis part II: multivariate data analysis--an introduction to concepts and methods. British journal of cancer, 89 (3). pp. 431-436. ISSN 0007-0920 DOI: https://doi.org/10.1038/sj.bjc.6601119
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Bradburn, MJ; Clark, TG; Love, SB; Altman, DG; (2003) Survival analysis Part III: multivariate data analysis -- choosing a model and assessing its adequacy and fit. British journal of cancer, 89 (4). pp. 605-611. ISSN 0007-0920 DOI: https://doi.org/10.1038/sj.bjc.6601120
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Briggs, Andrew; Clark, Taane; Wolstenholme, Jane; Clarke, Philip; (2003) Missing... presumed at random: cost-analysis of incomplete data. Health economics, 12 (5). pp. 377-392. ISSN 1057-9230 DOI: https://doi.org/10.1002/hec.766 Full text not available from this repository.

Clark, TG; Bradburn, MJ; Love, SB; Altman, DG; (2003) Survival analysis part I: basic concepts and first analyses. British journal of cancer, 89 (2). pp. 232-238. ISSN 0007-0920 DOI: https://doi.org/10.1038/sj.bjc.6601118
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Clark, TG; Bradburn, MJ; Love, SB; Altman, DG; (2003) Survival analysis part IV: further concepts and methods in survival analysis. British journal of cancer, 89 (5). pp. 781-786. ISSN 0007-0920 DOI: https://doi.org/10.1038/sj.bjc.6601117
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Clark, TG; Murphy, MFG; Rothwell, PM; (2003) Long term risks of stroke, myocardial infarction, and vascular death in "low risk" patients with a non-recent transient ischaemic attack. Journal of neurology, neurosurgery, and psychiatry, 74 (5). pp. 577-580. ISSN 0022-3050 DOI: https://doi.org/10.1136/jnnp.74.5.577 Full text not available from this repository.

Clark, Taane G; Altman, Douglas G; (2003) Developing a prognostic model in the presence of missing data: an ovarian cancer case study. Journal of clinical epidemiology, 56 (1). pp. 28-37. ISSN 0895-4356 DOI: https://doi.org/10.1016/s0895-4356(02)00539-5 Full text not available from this repository.

Munafò, MR; Clark, TG; Moore, LR; Payne, E; Walton, R; Flint, J; (2003) Genetic polymorphisms and personality in healthy adults: a systematic review and meta-analysis. Molecular psychiatry, 8 (5). pp. 471-484. ISSN 1359-4184 DOI: https://doi.org/10.1038/sj.mp.4001326 Full text not available from this repository.

Patel, Naina; Goff, Lindsey K; Clark, Taane; Ford, Anthony M; Foot, Nicola; Lillington, Debra; Hing, Sandra; Pritchard-Jones, Kathy; Jones, Louise K; Saha, Vaskar; (2003) Expression profile of wild-type ETV6 in childhood acute leukaemia. British journal of haematology, 122 (1). pp. 94-98. ISSN 0007-1048 DOI: https://doi.org/10.1046/j.1365-2141.2003.04399.x Full text not available from this repository.

Whitlock, G; Norton, R; Clark, T; Pledger, M; Jackson, R; MacMahon, S; (2003) Motor vehicle driver injury and socioeconomic status: a cohort study with prospective and retrospective driver injuries. Journal of epidemiology and community health, 57 (7). pp. 512-516. ISSN 0143-005X DOI: https://doi.org/10.1136/jech.57.7.512 Full text not available from this repository.

Whitlock, Gary; Norton, Robyn; Clark, Taane; Jackson, Rodney; MacMahon, Stephen; (2003) Is body mass index a risk factor for motor vehicle driver injury? A cohort study with prospective and retrospective outcomes. International journal of epidemiology, 32 (1). pp. 147-149. ISSN 0300-5771 DOI: https://doi.org/10.1093/ije/dyg022 Full text not available from this repository.

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; (2002) Recurrence after abdominal surgery for Crohn's disease: relationship to disease site and surgical procedure. Diseases of the colon and rectum, 45 (3). pp. 377-383. ISSN 0012-3706 DOI: https://doi.org/10.1007/s10350-004-6186-0 Full text not available from this repository.

Clark, Taane G; Altman, Douglas G; De Stavola, Bianca L; (2002) Quantification of the completeness of follow-up. Lancet, 359 (9314). pp. 1309-1310. ISSN 0140-6736 DOI: https://doi.org/10.1016/s0140-6736(02)08272-7 Full text not available from this repository.

Johnstone, Elaine C; Clark, Taane G; Griffiths, Siân-Elin; Murphy, Michael F; Walton, Robert T; (2002) Polymorphisms in dopamine metabolic enzymes and tobacco consumption in smokers: seeking confirmation of the association in a follow-up study. Pharmacogenetics, 12 (7). pp. 585-587. ISSN 0960-314X DOI: https://doi.org/10.1097/00008571-200210000-00012 Full text not available from this repository.

Whitlock, Gary; Clark, Taane; (2002) The effect of missing values for covariates. Epidemiology (Cambridge, Mass), 13 (1). 113-. ISSN 1044-3983 DOI: https://doi.org/10.1097/00001648-200201000-00019 Full text not available from this repository.

2001

Clark, TG; Stewart, ME; Altman, DG; Gabra, H; Smyth, JF; (2001) A prognostic model for ovarian cancer. British journal of cancer, 85 (7). pp. 944-952. ISSN 0007-0920 DOI: https://doi.org/10.1054/bjoc.2001.2030
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Whitlock, G; Clark, T; Vander Hoorn, S; Rodgers, A; Jackson, R; Norton, R; MacMahon, S; (2001) Random errors in the measurement of 10 cardiovascular risk factors. European journal of epidemiology, 17 (10). pp. 907-909. ISSN 0393-2990 DOI: https://doi.org/10.1023/a:1016228410194 Full text not available from this repository.

This list was generated on Wed Aug 12 06:47:42 2020 BST.