Item Type Date Title No Grouping

Additional file 1: of Identifying mixed Mycobacterium tuberculosis infections from whole genome sequence data. (2018) Sobkowiak, Benjamin; Glynn, Judith R.; Houben, Rein M. G. J.; Mallard, Kim; Phelan, Jody E.; Guerra-Assunção, José Afonso; Banda, Louis; Mzembe, Themba; Viveiros, Miguel; McNerney, Ruth; Parkhill, Julian; Crampin, Amelia C.; Clark, Taane G.

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

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

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

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

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

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

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

Mycobacterium tuberculosis Nonthaburi genotype raw reads. (2016) Coker, Olabisi Oluwabukola; Chaiprasert, Angkana; Ngamphiw, Chumpol; Tongsima, Sissades; Regmi, Sanjib Mani; Clark, Taane; Ong, Rick Twee Hee; Teo, Yik-Ying; Prammananan, Therdsak; Palittapongarnpim, Prasit

Whole genome sequences for M.tuberculosis isolates from the TDR strain bank. (2015) Phelan, Jody; Coll, Francesc; Mcnerney, Ruth; Ascher, David B.; Pires, Douglas E. V.; Furnham, Nick; Coeck, Nele; Hill-Cawthorne, Grant A.; Nair, Mridul B.; Mallard, Kim; Ramsay, Andrew; Campino, Susana; Hibberd, Martin; Pain, Arnab; Rigouts, Leen; Clark, Taane description

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

PhyloTrack. (2015) Benavente, Ernest; Coll, Francesc; Furnham, Nick; Mcnerney, Ruth; Glynn, Judith; Campino, Susana; Pain, Arnab; Mohareb, Fady R; Clark, Taane

Genome-wide analysis of selection on the malaria parasite Plasmodium falciparum in West African populations of differing infection endemicity: Supplementary data. (2015) Mobegi, Victor; Duffy, Craig; Amambua-Ngwa, Alfred; Loua, Kovana M; Laman, Eugene; Nwakanma, Davis C; MacInnis, Bronwyn; Aspeling-jones, Harvey; Murray, Lee; Clark, Taane; Kwiatkowski, Dominic P; Conway, David grid_on

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

TB Profiler. (2015) Coll, Francesc; Mcnerney, Ruth; Preston, Mark D.; Guerra-assunção, José Afonso; Warry, Andrew; Hill-Cawthorne, Grant; Mallard, Kim; Nair, Mridul; Miranda, Anabela; Alves, Adriana; Perdigão, João; Viveiros, Miguel; Portugal, Isabel; Hasan, Zahra; Hasan, Rumina; Glynn, Judith; Martin, Nigel; Pain, Arnab; Clark, Taane folder_zip

PolyTB: A web-based resource designed to explore Mycobacterium tuberculosis complex (MTBC) genomic variation at a global scale. (2014) Coll, Francesc; Preston, Mark; Guerra-Assunção, José Afonso; Hill-Cawthorn, Grant; Harris, David; Perdigão, João; Viveiros, Miguel; Portugal, Isabel; Drobniewski, Francis; Gagneux, Sebastien; Glynn, Judith R.; Pain, Arnab; Parkhill, Julian; McNerney, Ruth; Martin, Nigel; Clark, Taane

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

Tuberculosis Patients Blood Gene Expression Through Treatment. (2012) Cliff, Jackie; Lee, Ji-Sook; Constantinou, Nicholas; Cho, Jang-Eun; Clark, Taane G.; Ronacher, Katharina; King, Elizabeth C.; Lukey, Pauline T.; Duncan, Ken; Van Helden, Paul D.; Walzl, Gerhard; Dockrell, Hazel M.

Tuberculosis Patients Blood Gene Expression Through Treatment (cured and end-of-treatment patients). (2012) Cliff, Jackie; Lee, Ji-Sook; Constantinou, Nicholas; Cho, Jang-Eun; Clark, Taane G.; Ronacher, Katharina; King, Elizabeth C.; Lukey, Pauline T.; Duncan, Ken; Van Helden, Paul D.; Walzl, Gerhard; Dockrell, Hazel M.

In Silico Spoligotyping. (2012) Coll, Francesc; Mallard, K; Preston, MD; Bentley, S; Parkhill, Julian; Mcnerney, Ruth; Martin, N; Clark, Taane

VCF Viewer (VARB). (2012) Preston, Mark D.; Manske, M; Horner, N; Assefa, S; Campino, S; Auburn, S; Zongo, I; Ouedraogo, JB; Nosten, F; Anderson, T; Clark, Taane

SnoopCGH. (2009) Almagro-Garcia, Jacob; Clark, Taane