Acford-Palmer, H; (2024) A genomic investigation into three malaria vectors: An. darlingi, An. funestus, and An. stephensi. PhD thesis, London School of Hygiene & Tropical Medicine. DOI: https://doi.org/10.17037/PUBS.04672667

Higgins, Matthew; Kristan, Mojca; Collins, Emma L; Messenger, Louisa A; Dombrowski, Jamille G; Vanheer, Leen N; Nolder, Debbie; Drakeley, Christopher J; Stone, William; Mahamar, Almahamoudou; +12 more... Bousema, Teun; Delves, Michael; Bandibabone, Janvier; N'Do, Sévérin; Bantuzeko, Chimanuka; Zawadi, Bertin; Walker, Thomas; Sutherland, Colin J; Marinho, Claudio RF; Cameron, Mary M; Clark, Taane G; Campino, Susana; (2024) A Pan Plasmodium lateral flow recombinase polymerase amplification assay for monitoring malaria parasites in vectors and human populations. Scientific reports, 14 (1). 20165-. ISSN 2045-2322 DOI: https://doi.org/10.1038/s41598-024-71129-4

Moss, Sophie; Jones, Robert T; Pretorius, Elizabeth; da Silva, Eunice Teixeira; Higgins, Matthew; Kristan, Mojca; Acford-Palmer, Holly; Collins, Emma L; Rodrigues, Amabelia; Krishna, Sanjeev; +3 more... Clark, Taane G; Last, Anna; Campino, Susana; (2024) Phenotypic evidence of deltamethrin resistance and identification of selective sweeps in Anopheles mosquitoes on the Bijagós Archipelago, Guinea-Bissau. Scientific reports, 14 (1). 22840-. ISSN 2045-2322 DOI: https://doi.org/10.1038/s41598-024-73996-3

Moss, Sophie; Pretorius, Elizabeth; Ceesay, Sainey; da Silva, Eunice Teixeira; Hutchins, Harry; Ndiath, Mamadou Ousmane; Acford-Palmer, Holly; Collins, Emma L; Higgins, Matthew; Phelan, Jody; +7 more... Jones, Robert T; Vasileva, Hristina; Rodrigues, Amabelia; Krishna, Sanjeev; Clark, Taane G; Last, Anna; Campino, Susana; (2024) Whole genome sequence analysis of population structure and insecticide resistance markers in Anopheles melas from the Bijagós Archipelago, Guinea-Bissau. Parasites & vectors, 17 (1). 396-. ISSN 1756-3305 DOI: https://doi.org/10.1186/s13071-024-06476-2

Spadar, Anton; Collins, Emma; Messenger, Louisa A; Clark, Taane G; Campino, Susana; (2024) Uncovering the genetic diversity in Aedes aegypti insecticide resistance genes through global comparative genomics. Scientific Reports, 14 (1). 13447-. ISSN 2045-2322 DOI: https://doi.org/10.1038/s41598-024-64007-6

Tsang, Kara K; Lam, Margaret MC; Wick, Ryan R; Wyres, Kelly L; Bachman, Michael; Baker, Stephen; Barry, Katherine; Brisse, Sylvain; Campino, Susana; Chiaverini, Alexandra; +65 more... Cirillo, Daniela Maria; Clark, Taane; Corander, Jukka; Corbella, Marta; Cornacchia, Alessandra; Cuénod, Aline; D'Alterio, Nicola; Di Marco, Federico; Donado-Godoy, Pilar; Egli, Adrian; Farzana, Refath; Feil, Edward J; Fostervold, Aasmund; Gorrie, Claire L; Hassan, Brekhna; Hetland, Marit Andrea Klokkhammer; Hoa, Le Nguyen Minh; Hoi, Le Thi; Howden, Benjamin; Ikhimiukor, Odion O; Jenney, Adam WJ; Kaspersen, Håkon; Khokhar, Fahad; Leangapichart, Thongpan; Ligowska-Marzęta, Małgorzata; Löhr, Iren Høyland; Long, Scott W; Mathers, Amy J; McArthur, Andrew G; Nagaraj, Geetha; Oaikhena, Anderson O; Okeke, Iruka N; Perdigão, João; Parikh, Hardik; Pham, My H; Pomilio, Francesco; Raffelsberger, Niclas; Rakotondrasoa, Andriniaina; Kumar, KL Ravi; Roberts, Leah W; Rodrigues, Carla; Samuelsen, Ørjan; Sands, Kirsty; Sassera, Davide; Seth-Smith, Helena; Shamanna, Varun; Sherry, Norelle L; Sia, Sonia; Spadar, Anton; Stoesser, Nicole; Sunde, Marianne; Sundsfjord, Arnfinn; Thach, Pham Ngoc; Thomson, Nicholas R; Thorpe, Harry A; Torok, M Estée; Trang, Van Dinh; Trung, Nguyen Vu; Vornhagen, Jay; Walsh, Timothy; Warne, Ben; Wilson, Hayley; Wright, Gerard D; Holt, Kathryn E; KlebNET-Gsp Amr Genotype-Phenotype Group; (2024) Diversity, functional classification and genotyping of SHV β-lactamases in Klebsiella pneumoniae. Microbial genomics, 10 (10). ISSN 2057-5858 DOI: https://doi.org/10.1099/mgen.0.001294

Wang, Linfeng; Lim, Dodge R; Phelan, Jody E; Reyes, Lorenzo T; Palparan, Alma G; Sanchez, Maria Guileane C; Asuncion, Louella Abigail A; Tujan, Ma Angelica A; Medado, Inez Andrea P; Daga, Chona Mae A; +14 more... Llames, Jo-Hannah S; Mitarai, Satoshi; Murase, Yoshiro; Morishige, Yuta; Ang, Concepcion F; Malabad, John Carlo M; Montoya, Jaime C; Hafalla, Julius C; Campino, Susana; Hibberd, Martin L; Ama, Cecilia G; Basilio, Ramon P; La Paz, Eva Maria Cutiongoco-De; Clark, Taane G; (2024) Whole genome sequencing analysis of Mycobacterium tuberculosis reveals circulating strain types and drug-resistance mutations in the Philippines. Scientific reports, 14 (1). 19602-. ISSN 2045-2322 DOI: https://doi.org/10.1038/s41598-024-70471-x

Dombrowski, Jamille Gregório; Acford-Palmer, Holly; Campos, Monica; Separovic, Erika Paula Machado; Epiphanio, Sabrina; Clark, Taane Gregory; Campino, Susana; Marinho, Claudio Romero Farias; (2023) Genetic diversity of Plasmodium vivax isolates from pregnant women in the Western Brazilian Amazon: a prospective cohort study. Lancet regional health - Americas, 18. 100407-. ISSN 2667-193X DOI: https://doi.org/10.1016/j.lana.2022.100407

Eccleston, Ruth Charlotte; Manko, Emilia; Campino, Susana; Clark, Taane G; Furnham, Nicholas; (2023) A computational method for predicting the most likely evolutionary trajectories in the stepwise accumulation of resistance mutations. eLife, 12. e84756-. ISSN 2050-084X DOI: https://doi.org/10.7554/eLife.84756

Gómez-González, Paula Josefina; Grabowska, Anna D; Tientcheu, Leopold D; Tsolaki, Anthony G; Hibberd, Martin L; Campino, Susana; Phelan, Jody E; Clark, Taane G; (2023) Functional genetic variation in pe/ppe genes contributes to diversity in Mycobacterium tuberculosis lineages and potential interactions with the human host. Frontiers in microbiology, 14. 1244319-. ISSN 1664-302X DOI: https://doi.org/10.3389/fmicb.2023.1244319

Higgins, MCW; (2023) Developing an RPA-based Molecular Barcoding Tool for Plasmodium Malaria. PhD thesis, London School of Hygiene & Tropical Medicine. DOI: https://doi.org/10.17037/PUBS.04670986

Ibrahim, A; (2023) From genome to function: A genomic investigation into understudied populations of the malaria parasites Plasmodium malariae and P.vivax. PhD thesis, London School of Hygiene & Tropical Medicine. DOI: https://doi.org/10.17037/PUBS.04670765

Ibrahim, Amy; Manko, Emilia; Dombrowski, Jamille G; Campos, Mónica; Benavente, Ernest Diez; Nolder, Debbie; Sutherland, Colin J; Nosten, Francois; Fernandez, Diana; Vélez-Tobón, Gabriel; +11 more... Castaño, Alberto Tobón; Aguiar, Anna Caroline C; Pereira, Dhelio Batista; da Silva Santos, Simone; Suarez-Mutis, Martha; Di Santi, Silvia Maria; Regina de Souza Baptista, Andrea; Dantas Machado, Ricardo Luiz; Marinho, Claudio RF; Clark, Taane G; Campino, Susana; (2023) Population-based genomic study of Plasmodium vivax malaria in seven Brazilian states and across South America. Lancet regional health. Americas, 18. 100420-. ISSN 2667-193X DOI: https://doi.org/10.1016/j.lana.2022.100420

Kristan, Mojca; Acford-Palmer, Holly; Campos, Monica Oliveira; Collins, Emma L; Phelan, Jody; Portwood, Natalie M; Pelloquin, Bethanie; Clarke, Sian; Lines, Jo; Clark, Taane G; +3 more... Walker, Thomas; Campino, Susana; Messenger, Louisa A; (2023) Towards environmental detection, quantification, and molecular characterization of Anopheles stephensi and Aedes aegypti from experimental larval breeding sites. Scientific Reports, 13 (1). 2729-. ISSN 2045-2322 DOI: https://doi.org/10.1038/s41598-023-29657-y

Libiseller-Egger, Julian; Wang, Linfeng; Deelder, Wouter; Campino, Susana; Clark, Taane G; Phelan, Jody E; (2023) TB-ML-a framework for comparing machine learning approaches to predict drug resistance of Mycobacterium tuberculosis. Bioinformatics advances, 3 (1). vbad040-. ISSN 2635-0041 DOI: https://doi.org/10.1093/bioadv/vbad040

McIntyre-Nolan, Shannon; Kumar, Vijay; Mark-Carew, Miguella; Kumar, Kundan; Nightingale, Emily S; Dalla Libera Marchiori, Giorgia; Rogers, Matthew E; Kristan, Mojca; Campino, Susana; Medley, Graham F; +2 more... Das, Pradeep; Cameron, Mary M; (2023) Comparison of collection methods for Phlebotomus argentipes sand flies to use in a molecular xenomonitoring system for the surveillance of visceral leishmaniasis. PLoS neglected tropical diseases, 17 (9). e0011200-. ISSN 1935-2727 DOI: https://doi.org/10.1371/journal.pntd.0011200

Moss, Sophie; Mańko, Emilia; Vasileva, Hristina; Da Silva, Eunice Teixeira; Goncalves, Adriana; Osborne, Ashley; Phelan, Jody; Rodrigues, Amabelia; Djata, Paulo; D'Alessandro, Umberto; +5 more... Mabey, David; Krishna, Sanjeev; Last, Anna; Clark, Taane G; Campino, Susana; (2023) Population dynamics and drug resistance mutations in Plasmodium falciparum on the Bijagós Archipelago, Guinea-Bissau. Scientific reports, 13 (1). 6311-. ISSN 2045-2322 DOI: https://doi.org/10.1038/s41598-023-33176-1

Osborne, AA; (2023) A multifaceted investigation of the genomics of malaria, from parasite to host, using next-generation sequencing technologies. PhD thesis, London School of Hygiene & Tropical Medicine. DOI: https://doi.org/10.17037/PUBS.04671412

Phelan, Jody E; Turkiewicz, Anna; Manko, Emilia; Thorpe, Joseph; Vanheer, Leen N; van de Vegte-Bolmer, Marga; Ngoc, Nguyen Thi Hong; Binh, Nguyen Thi Huong; Thieu, Nguyen Quang; Gitaka, Jesse; +8 more... Nolder, Debbie; Beshir, Khalid B; Dombrowski, Jamille G; Di Santi, Silvia Maria; Bousema, Teun; Sutherland, Colin J; Campino, Susana; Clark, Taane G; (2023) Rapid profiling of Plasmodium parasites from genome sequences to assist malaria control. Genome medicine, 15 (1). 96-. ISSN 1756-994X DOI: https://doi.org/10.1186/s13073-023-01247-7

Phelan, Jody; Gomez-Gonzalez, Paula Josefina; Andreu, Nuria; Omae, Yosuke; Toyo-Oka, Licht; Yanai, Hideki; Miyahara, Reiko; Nedsuwan, Supalert; de Sessions, Paola Florez; Campino, Susana; +10 more... Sallah, Neneh; Parkhill, Julian; Smittipat, Nat; Palittapongarnpim, Prasit; Mushiroda, Taisei; Kubo, Michiaki; Tokunaga, Katsushi; Mahasirimongkol, Surakameth; Hibberd, Martin L; Clark, Taane G; (2023) Genome-wide host-pathogen analyses reveal genetic interaction points in tuberculosis disease. Nature communications, 14 (1). 549-. ISSN 2041-1723 DOI: https://doi.org/10.1038/s41467-023-36282-w

Spadar, A; (2023) Understanding the genetic diversity, antimicrobial resistance, and virulence of Klebsiella pneumoniae bacteria. PhD thesis, London School of Hygiene & Tropical Medicine. DOI: https://doi.org/10.17037/PUBS.04670853

Spadar, Anton; Perdigão, João; Campino, Susana; Clark, Taane G; (2023) Large-scale genomic analysis of global Klebsiella pneumoniae plasmids reveals multiple simultaneous clusters of carbapenem-resistant hypervirulent strains. Genome medicine, 15 (1). 3-. ISSN 1756-994X DOI: https://doi.org/10.1186/s13073-023-01153-y

Spadar, Anton; Phelan, Jody E; Clark, Taane G; Campino, Susana; (2023) Large-scale reference-free analysis of flavivirus sequences in Aedes aegypti whole genome DNA sequencing data. Parasites & vectors, 16 (1). 265-. ISSN 1756-3305 DOI: https://doi.org/10.1186/s13071-023-05898-8

Turkiewicz, Anna; Manko, Emilia; Oresegun, Damiola R; Nolder, Debbie; Spadar, Anton; Sutherland, Colin J; Cox-Singh, Janet; Moon, Robert W; Lau, Yee-Ling; Campino, Susana; +1 more... Clark, Taane G; (2023) Population genetic analysis of Plasmodium knowlesi reveals differential selection and exchange events between Borneo and Peninsular sub-populations. Scientific reports, 13 (1). 2142-. ISSN 2045-2322 DOI: https://doi.org/10.1038/s41598-023-29368-4

Ward, D; (2023) Zika virus surveillance in human and mosquito populations in Cabo Verde – exploring molecular and serological tools for the surveillance of emerging infectious diseases. PhD thesis, London School of Hygiene & Tropical Medicine. DOI: https://doi.org/10.17037/PUBS.04670855

Cameron, Mary; Campino, Susana; Mark-Carew, Miguella; Pandey, Krishna; Kumar, Kundan; Kumar, Ashish; Kristan, Mojca; Das, Pradeep; Kumar, Vijay; (2022) S17-03: IS MOLECULAR XENOMONITORING A USEFUL TOOL FOR MONITORING VISCERAL LEISHMANIASIS TRANSMISSION IN THE PERI-ELIMINATION PHASE? WorldLeish 7: Proceedings and Abstract Book. pp. 139-141. ISSN 2954-6575 https://researchonline.lshtm.ac.uk/id/eprint/4670583

Campos, Monica; Phelan, Jody; Spadar, Anton; Collins, Emma; Gonçalves, Adéritow; Pelloquin, Bethanie; Vaselli, Natasha Marcella; Meiwald, Anne; Clark, Emma; Stica, Caleb; +12 more... Orsborne, James; Sylla, Moussa; Edi, Constant; Camara, Denka; Mohammed, Abdul Rahim; Afrane, Yaw Asare; Kristan, Mojca; Walker, Thomas; Gomez, Lara Ferrero; Messenger, Louisa A; Clark, Taane G; Campino, Susana; (2022) High-throughput barcoding method for the genetic surveillance of insecticide resistance and species identification in Anopheles gambiae complex malaria vectors. Scientific Reports, 12 (1). 13893-. ISSN 2045-2322 DOI: https://doi.org/10.1038/s41598-022-17822-8

Collins, Emma L; Phelan, Jody E; Hubner, Magdalena; Spadar, Anton; Campos, Monica; Ward, Daniel; Acford-Palmer, Holly; Gomes, Ana Rita; Silva, Keily; Ferrero Gomez, Lara; +2 more... Clark, Taane G; Campino, Susana; (2022) A next generation targeted amplicon sequencing method to screen for insecticide resistance mutations in Aedes aegypti populations reveals a rdl mutation in mosquitoes from Cabo Verde. PLoS neglected tropical diseases, 16 (12). e0010935-. ISSN 1935-2727 DOI: https://doi.org/10.1371/journal.pntd.0010935

Deelder, Wouter; Manko, Emilia; Phelan, Jody E; Campino, Susana; Palla, Luigi; Clark, Taane G; (2022) Geographical classification of malaria parasites through applying machine learning to whole genome sequence data. Scientific reports, 12 (1). 21150-. ISSN 2045-2322 DOI: https://doi.org/10.1038/s41598-022-25568-6

Deelder, Wouter; Napier, Gary; Campino, Susana; Palla, Luigi; Phelan, Jody; Clark, Taane G; (2022) A modified decision tree approach to improve the prediction and mutation discovery for drug resistance in Mycobacterium tuberculosis. BMC genomics, 23 (1). 46-. ISSN 1471-2164 DOI: https://doi.org/10.1186/s12864-022-08291-4

Fuehrer, Hans-Peter; Campino, Susana; Sutherland, Colin J; (2022) The primate malaria parasites Plasmodium malariae, Plasmodium brasilianum and Plasmodium ovale spp.: genomic insights into distribution, dispersal and host transitions. Malaria journal, 21 (1). 138-. ISSN 1475-2875 DOI: https://doi.org/10.1186/s12936-022-04151-4

Gómez-González, Paula J; Campino, Susana; Phelan, Jody E; Clark, Taane G; (2022) Portable sequencing of Mycobacterium tuberculosis for clinical and epidemiological applications. Briefings in Bioinformatics, 23 (5). bbac256. ISSN 1467-5463 DOI: https://doi.org/10.1093/bib/bbac256

Higgins, Matthew; Stringer, Oliver W; Ward, Daniel; Andrews, Jennifer M; Forrest, Matthew S; Campino, Susana; Clark, Taane G; (2022) Characterizing the Impact of Primer-Template Mismatches on Recombinase Polymerase Amplification. The Journal of molecular diagnostics, 24 (11). pp. 1207-1216. ISSN 1525-1578 DOI: https://doi.org/10.1016/j.jmoldx.2022.08.005

Kristan, Mojca; Cameron, Mary; Hazelgrove, Carlamarita; Kumar, Kundan; Kumar, Ashish; Kumar, Vijay; Campino, Susana; (2022) O30-05: KNOCKDOWN RESISTANCE MUTATIONS IN Phlebotomus argentipes FROM VILLAGES WITH AND WITHOUT INDOOR RESIDUAL SPRAYING IN BIHAR, INDIA. WorldLeish 7: Proceedings and Abstract Book. pp. 747-748. ISSN 2954-6575 https://researchonline.lshtm.ac.uk/id/eprint/4670582

Libiseller-Egger, Julian; Phelan, Jody E; Attia, Zachi I; Benavente, Ernest Diez; Campino, Susana; Friedman, Paul A; Lopez-Jimenez, Francisco; Leon, David A; Clark, Taane G; (2022) Deep learning-derived cardiovascular age shares a genetic basis with other cardiac phenotypes. Scientific reports, 12 (1). 22625-. ISSN 2045-2322 DOI: https://doi.org/10.1038/s41598-022-27254-z

Mark-Carew, Miguella; Cloots, Kristien; Singh, OP; Singh, AK; Malaviya, P; Hasker, Epco; Campino, Susana; Kristan, Mojca; Kumar, Kundan; Kumar, Ashish; +3 more... Kumar, Vijay; Sundar, Shyam; Cameron, Mary; (2022) O39-04: COMBINING HUMAN SEROSURVEILLANCE WITH MOLECULAR XENOMONITORING IN TWO ENDEMIC VILLAGES FOR VISCERAL LEISHMANIASIS SURVEILLANCE IN SARAN, BIHAR, INDIA. WorldLeish 7: Proceedings and Abstract Book. pp. 543-544. ISSN 2954-6575 https://researchonline.lshtm.ac.uk/id/eprint/4670584

Mazumder, Razib; Hussain, Arif; Phelan, Jody E; Campino, Susana; Haider, SM Arefeen; Mahmud, Araf; Ahmed, Dilruba; Asadulghani, Md; Clark, Taane G; Mondal, Dinesh; (2022) Non-lactose fermenting Escherichia coli: Following in the footsteps of lactose fermenting E. coli high-risk clones. Frontiers in Microbiology, 13. 1027494-. ISSN 1664-302X DOI: https://doi.org/10.3389/fmicb.2022.1027494

Moss, Sophie; Mańko, Emilia; Krishna, Sanjeev; Campino, Susana; Clark, Taane G; Last, Anna; (2022) How has mass drug administration with dihydroartemisinin-piperaquine impacted molecular markers of drug resistance? A systematic review. Malaria journal, 21 (1). 186-. ISSN 1475-2875 DOI: https://doi.org/10.1186/s12936-022-04181-y

Napier, Gary; Khan, Anwar Sheed; Jabbar, Abdul; Khan, Muhammad Tahir; Ali, Sajid; Qasim, Muhammad; Mohammad, Noor; Hasan, Rumina; Hasan, Zahra; Campino, Susana; +6 more... Ahmad, Sajjad; Khattak, Baharullah; Waddell, Simon J; Khan, Taj Ali; Phelan, Jody E; Clark, Taane G; (2022) Characterisation of drug-resistant Mycobacterium tuberculosis mutations and transmission in Pakistan. Scientific reports, 12 (1). 7703-. ISSN 2045-2322 DOI: https://doi.org/10.1038/s41598-022-11795-4

Oresegun, Damilola R; Thorpe, Peter; Benavente, Ernest Diez; Campino, Susana; Muh, Fauzi; Moon, Robert William; Clark, Taane Gregory; Cox-Singh, Janet; (2022) De Novo Assembly of Plasmodium knowlesi Genomes From Clinical Samples Explains the Counterintuitive Intrachromosomal Organization of Variant SICAvar and kir Multiple Gene Family Members. Frontiers in genetics, 13. 855052-. ISSN 1664-8021 DOI: https://doi.org/10.3389/fgene.2022.855052

Phelan, Jody; Deelder, Wouter; Ward, Daniel; Campino, Susana; Hibberd, Martin L; Clark, Taane G; (2022) COVID-profiler: a webserver for the analysis of SARS-CoV-2 sequencing data. BMC Bioinformatics, 23 (1). 137-. ISSN 1471-2105 DOI: https://doi.org/10.1186/s12859-022-04632-y

Spadar, Anton; Perdigão, João; Campino, Susana; Clark, Taane G; (2022) Genomic analysis of hypervirulent Klebsiella pneumoniae reveals potential genetic markers for differentiation from classical strains. Scientific Reports, 12 (1). 13671-. ISSN 2045-2322 DOI: https://doi.org/10.1038/s41598-022-17995-2

Spadar, Anton; Phelan, Jody; Elias, Rita; Modesto, Ana; Caneiras, Cátia; Marques, Cátia; Lito, Luís; Pinto, Margarida; Cavaco-Silva, Patrícia; Ferreira, Helena; +8 more... Pomba, Constança; Da Silva, Gabriela J; Saavedra, Maria José; Melo-Cristino, José; Duarte, Aida; Campino, Susana; Perdigão, João; Clark, Taane G; (2022) Genomic epidemiological analysis of Klebsiella pneumoniae from Portuguese hospitals reveals insights into circulating antimicrobial resistance. Scientific Reports, 12 (1). 13791-. ISSN 2045-2322 DOI: https://doi.org/10.1038/s41598-022-17996-1

Ward, Daniel; Gomes, Ana Rita; Tetteh, Kevin KA; Sepúlveda, Nuno; Gomez, Lara Ferrero; Campino, Susana; Clark, Taane G; (2022) Sero-epidemiological study of arbovirus infection following the 2015-2016 Zika virus outbreak in Cabo Verde. Scientific Reports, 12 (1). 11719-. ISSN 2045-2322 DOI: https://doi.org/10.1038/s41598-022-16115-4

Benavente, Ernest Diez; Manko, Emilia; Phelan, Jody; Campos, Monica; Nolder, Debbie; Fernandez, Diana; Velez-Tobon, Gabriel; Castaño, Alberto Tobón; Dombrowski, Jamille G; Marinho, Claudio RF; +8 more... Aguiar, Anna Caroline C; Pereira, Dhelio Batista; Sriprawat, Kanlaya; Nosten, Francois; Moon, Robert; Sutherland, Colin J; Campino, Susana; Clark, Taane G; (2021) Distinctive genetic structure and selection patterns in Plasmodium vivax from South Asia and East Africa. Nature communications, 12 (1). 3160-. ISSN 2041-1723 DOI: https://doi.org/10.1038/s41467-021-23422-3

Da Veiga Leal, Silvania; Ward, Daniel; Campino, Susana; Benavente, Ernest Diez; Ibrahim, Amy; Claret, Tânia; Isaías, Varela; Monteiro, Davidson; Clark, Taane G; Gonçalves, Luzia; +4 more... Valdez, Tomas; da Luz Lima Mendonça, Maria; Silveira, Henrique; Nogueira, Fatima; (2021) Drug resistance profile and clonality of Plasmodium falciparum parasites in Cape Verde: the 2017 malaria outbreak. Malaria journal, 20 (1). 172-. ISSN 1475-2875 DOI: https://doi.org/10.1186/s12936-021-03708-z

Deelder, Wouter; Benavente, Ernest Diez; Phelan, Jody; Manko, Emilia; Campino, Susana; Palla, Luigi; Clark, Taane G; (2021) Using deep learning to identify recent positive selection in malaria parasite sequence data. Malaria journal, 20 (1). 270-. ISSN 1475-2875 DOI: https://doi.org/10.1186/s12936-021-03788-x

Dombrowski, Jamille Gregório; Barateiro, André; Peixoto, Erika Paula Machado; Barros, André Boler Cláudio da Silva; Souza, Rodrigo Medeiros de; Clark, Taane Gregory; Campino, Susana; Wrenger, Carsten; Wunderlich, Gerhard; Palmisano, Giuseppe; +3 more... Epiphanio, Sabrina; Gonçalves, Lígia Antunes; Marinho, Claudio Romero Farias; (2021) Adverse pregnancy outcomes are associated with Plasmodium vivax malaria in a prospective cohort of women from the Brazilian Amazon. PLoS neglected tropical diseases, 15 (4). e0009390-. ISSN 1935-2727 DOI: https://doi.org/10.1371/journal.pntd.0009390

Elias, Rita; Melo-Cristino, José; Lito, Luís; Pinto, Margarida; Gonçalves, Luísa; Campino, Susana; Clark, Taane G; Duarte, Aida; Perdigão, João; (2021) Klebsiella pneumoniae and Colistin Susceptibility Testing: Performance Evaluation for Broth Microdilution, Agar Dilution and Minimum Inhibitory Concentration Test Strips and Impact of the "Skipped Well" Phenomenon. Diagnostics (Basel, Switzerland), 11 (12). p. 2352. ISSN 2075-4418 DOI: https://doi.org/10.3390/diagnostics11122352 Item availability may be restricted.

Gomes, Laura C; Campino, Susana; Marinho, Cláudio RF; Clark, Taane G; Phelan, Jody E; (2021) Whole genome sequencing reveals large deletions and other loss of function mutations in Mycobacterium tuberculosis drug resistance genes. Microbial genomics, 7 (12). ISSN 2057-5858 DOI: https://doi.org/10.1099/mgen.0.000724

Grignard, Lynn; Nolder, Debbie; Sepulveda, Nuno; Berhane, Araia; Mihreteab, Selam; Kaaya, Robert; Phelan, Jody; Moser, Kara; van Schalkwyk, Donelly A; Campino, Susana; +7 more... Parr, Jonathan B; Juliano, Jonathan J; Chiodini, Peter; Cunningham, Jane; Sutherland, Colin J; Drakeley, Chris; Beshir, Khalid B; (2021) Corrigendum to 'A novel multiplex qPCR assay for detection of Plasmodium falciparum with histidine-rich protein 2 and 3 (pfhrp2 and pfhrp3) deletions in polyclonal infections'. EBioMedicine, 65. 103261-. ISSN 2352-3964 DOI: https://doi.org/10.1016/j.ebiom.2021.103261

Gómez-González, Paula J; Perdigao, Joao; Gomes, Pedro; Puyen, Zully M; Santos-Lazaro, David; Napier, Gary; Hibberd, Martin L; Viveiros, Miguel; Portugal, Isabel; Campino, Susana; +2 more... Phelan, Jody E; Clark, Taane G; (2021) Genetic diversity of candidate loci linked to Mycobacterium tuberculosis resistance to bedaquiline, delamanid and pretomanid. Scientific reports, 11 (1). 19431-. ISSN 2045-2322 DOI: https://doi.org/10.1038/s41598-021-98862-4

Jallow, MW; (2021) The impact of single nucleotide polymorphisms in human genes that regulate hepcidin and iron on oral iron absorption and the risk of anaemia in Africans. PhD (research paper style) thesis, London School of Hygiene & Tropical Medicine. DOI: https://doi.org/10.17037/PUBS.04659848

Jallow, Momodou W; Campino, Susana; Prentice, Andrew M; Cerami, Carla; (2021) A recall-by-genotype study on polymorphisms in the TMPRSS6 gene and oral iron absorption: a study protocol. F1000Research, 8. p. 701. DOI: https://doi.org/10.12688/f1000research.19080.2

Jallow, Momodou W; Campino, Susana; Prentice, Andrew M; Cerami, Carla; (2021) Association of common TMPRSS6 and TF gene variants with hepcidin and iron status in healthy rural Gambians. Scientific reports, 11 (1). 8075-. ISSN 2045-2322 DOI: https://doi.org/10.1038/s41598-021-87565-5

Jallow, Momodou W; Campino, Susana; Saidykhan, Alasana; Prentice, Andrew M; Cerami, Carla; (2021) Common Variants in the TMPRSS6 Gene Alter Hepcidin but not Plasma Iron in Response to Oral Iron in Healthy Gambian Adults: A Recall-by-Genotype Study. Current developments in nutrition, 5 (3). nzab014-. ISSN 2475-2991 DOI: https://doi.org/10.1093/cdn/nzab014

Khan, Anwar Sheed; Phelan, Jody E; Khan, Muhammad Tahir; Ali, Sajid; Qasim, Muhammad; Napier, Gary; Campino, Susana; Ahmad, Sajjad; Cabral-Marques, Otavio; Zhang, Shulin; +4 more... Rahman, Hazir; Wei, Dong-Qing; Clark, Taane G; Khan, Taj Ali; (2021) Author Correction: Characterization of rifampicin-resistant Mycobacterium tuberculosis in Khyber Pakhtunkhwa, Pakistan. Scientific reports, 11 (1). 15100-. ISSN 2045-2322 DOI: https://doi.org/10.1038/s41598-021-94687-3

Khan, Anwar Sheed; Phelan, Jody E; Khan, Muhammad Tahir; Ali, Sajid; Qasim, Muhammad; Napier, Gary; Campino, Susana; Ahmad, Sajjad; Cabral-Marques, Otavio; Zhang, Shulin; +4 more... Rahman, Hazir; Wei, Dong-Qing; Clark, Taane G; Khan, Taj Ali; (2021) Characterization of rifampicin-resistant Mycobacterium tuberculosis in Khyber Pakhtunkhwa, Pakistan. Scientific reports, 11 (1). 14194-. ISSN 2045-2322 DOI: https://doi.org/10.1038/s41598-021-93501-4

Miguel-Blanco, Celia; Murithi, James M; Benavente, Ernest Diez; Angrisano, Fiona; Sala, Katarzyna A; van Schalkwyk, Donelly A; Vanaerschot, Manu; Schwach, Frank; Fuchter, Matthew J; Billker, Oliver; +9 more... Sutherland, Colin J; Campino, Susana G; Clark, Taane G; Blagborough, Andrew M; Fidock, David A; Herreros, Esperanza; Gamo, Francisco Javier; Baum, Jake; Delves, Michael J; (2021) The antimalarial efficacy and mechanism of resistance of the novel chemotype DDD01034957. Scientific reports, 11 (1). 1888-. ISSN 2045-2322 DOI: https://doi.org/10.1038/s41598-021-81343-z

Nolder, Debbie; Stewart, Lindsay; Tucker, Julie; Ibrahim, Amy; Gray, Adam; Corrah, Tumena; Gallagher, Carmel; John, Laurence; O'Brien, Edel; Aggarwal, Dinesh; +8 more... Benavente, Ernest Diez; van Schalkwyk, Donelly; Henriques, Gisela; Sepúlveda, Nuno; Campino, Susana; Chiodini, Peter; Sutherland, Colin; Beshir, Khalid B; (2021) Failure of rapid diagnostic tests in Plasmodium falciparum malaria cases among travelers to the UK and Ireland: Identification and characterisation of the parasites. International journal of infectious diseases : IJID : official publication of the International Society for Infectious Diseases, 108. pp. 137-144. ISSN 1201-9712 DOI: https://doi.org/10.1016/j.ijid.2021.05.008

Nydahl, Tine Kliim; Ahorhorlu, Samuel Yao; Ndiaye, Magatte; Das, Manoj Kumar; Hansson, Helle; Bravo, Marina Crespo; Wang, Christian William; Lusingu, John; Theisen, Michael; Singh, Susheel Kumar; +5 more... Singh, Subhash; Campino, Susana; Lund, Ole; Roper, Cally; Alifrangis, Michael; (2021) Identification of Single-Nucleotide Polymorphisms in the Mitochondrial Genome and Kelch 13 Gene of Plasmodium falciparum in Different Geographical Populations. American Journal of Tropical Medicine and Hygiene, 105 (4). pp. 1085-1092. ISSN 0002-9637 DOI: https://doi.org/10.4269/ajtmh.21-0320

Osborne, Ashley; Manko, Emilia; Takeda, Mika; Kaneko, Akira; Kagaya, Wataru; Chan, Chim; Ngara, Mtakai; Kongere, James; Kita, Kiyoshi; Campino, Susana; +3 more... Kaneko, Osamu; Gitaka, Jesse; Clark, Taane G; (2021) Characterizing the genomic variation and population dynamics of Plasmodium falciparum malaria parasites in and around Lake Victoria, Kenya. Scientific Reports, 11 (1). 19809-. ISSN 2045-2322 DOI: https://doi.org/10.1038/s41598-021-99192-1

Sepúlveda, Nuno; Grignard, Lynn; Curry, Jonathan; Mahey, Laleta; Bastiaens, Guido JH; Tiono, Alfred B; Okebe, Joseph; Coulibaly, Sam A; Gonçalves, Bronner P; Affara, Muna; +15 more... Ouédraogo, Alphonse; Bougouma, Edith C; Sanou, Guillaume S; Nébié, Issa; Lanke, Kjerstin; Sirima, Sodiomon B; Dicko, Alassane; d'Alessandro, Umberto; Clark, Taane G; Campino, Susana; Chen, Ingrid; Eziefula, Alice C; Gosling, Roly; Bousema, Teun; Drakeley, Chris; (2021) G6PD Polymorphisms and Hemolysis After Antimalarial Treatment With Low Single-Dose Primaquine: A Pooled Analysis of Six African Clinical Trials. Frontiers in genetics, 12. 645688-. DOI: https://doi.org/10.3389/fgene.2021.645688

Spadar, Anton; Perdigão, João; Phelan, Jody; Charleston, James; Modesto, Ana; Elias, Rita; de Sessions, Paola Florez; Hibberd, Martin L; Campino, Susana; Duarte, Aida; +1 more... Clark, Taane G; (2021) Methylation analysis of Klebsiella pneumoniae from Portuguese hospitals. Scientific reports, 11 (1). 6491-. ISSN 2045-2322 DOI: https://doi.org/10.1038/s41598-021-85724-2

Spadar, Anton; Phelan, Jody E; Benavente, Ernest Diez; Campos, Monica; Gomez, Lara Ferrero; Mohareb, Fady; Clark, Taane G; Campino, Susana; (2021) Flavivirus integrations in Aedes aegypti are limited and highly conserved across samples from different geographic regions unlike integrations in Aedes albopictus. Parasites & vectors, 14 (1). 332-. ISSN 1756-3305 DOI: https://doi.org/10.1186/s13071-021-04828-w

Ward, Daniel; Higgins, Matthew; Phelan, Jody E; Hibberd, Martin L; Campino, Susana; Clark, Taane G; (2021) An integrated in silico immuno-genetic analytical platform provides insights into COVID-19 serological and vaccine targets. GENOME MEDICINE, 13 (1). 4-. ISSN 1756-994X DOI: https://doi.org/10.1186/s13073-020-00822-6

Campos, Monica; Ward, Daniel; Morales, Raika Francesca; Gomes, Ana Rita; Silva, Keily; Sepúlveda, Nuno; Gomez, Lara Ferrero; Clark, Taane G; Campino, Susana; (2020) Surveillance of Aedes aegypti populations in the city of Praia, Cape Verde: Zika virus infection, insecticide resistance and genetic diversity. PARASITES & VECTORS, 13 (1). 481-. ISSN 1756-3305 DOI: https://doi.org/10.1186/s13071-020-04356-z

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

Garimella, Kiran V; Iqbal, Zamin; Krause, Michael A; Campino, Susana; Kekre, Mihir; Drury, Eleanor; Kwiatkowski, Dominic; Sá, Juliana M; Wellems, Thomas E; McVean, Gil; (2020) Detection of simple and complex de novo mutations with multiple reference sequences. Genome research, 30 (8). pp. 1154-1169. ISSN 1088-9051 DOI: https://doi.org/10.1101/gr.255505.119

Grignard, Lynn; Nolder, Debbie; Sepúlveda, Nuno; Berhane, Araia; Mihreteab, Selam; Kaaya, Robert; Phelan, Jody; Moser, Kara; van Schalkwyk, Donelly A; Campino, Susana; +7 more... Parr, Jonathan B; Juliano, Jonathan J; Chiodini, Peter; Cunningham, Jane; Sutherland, Colin J; Drakeley, Chris; Beshir, Khalid B; (2020) A novel multiplex qPCR assay for detection of Plasmodium falciparum with histidine-rich protein 2 and 3 (pfhrp2 and pfhrp3) deletions in polyclonal infections. EBioMedicine, 55. 102757-. ISSN 2352-3964 DOI: https://doi.org/10.1016/j.ebiom.2020.102757 Item availability may be restricted.

Ibrahim, Amy; Diez Benavente, Ernest; Nolder, Debbie; Proux, Stephane; Higgins, Matthew; Muwanguzi, Julian; Gomez Gonzalez, Paula Josefina; Fuehrer, Hans-Peter; Roper, Cally; Nosten, Francois; +3 more... Sutherland, Colin; Clark, Taane G; Campino, Susana; (2020) Selective whole genome amplification of Plasmodium malariae DNA from clinical samples reveals insights into population structure. SCIENTIFIC REPORTS, 10 (1). 10832-. ISSN 2045-2322 DOI: https://doi.org/10.1038/s41598-020-67568-4

Jallow, Momodou W; Cerami, Carla; Clark, Taane G; Prentice, Andrew M; Campino, Susana; (2020) Differences in the frequency of genetic variants associated with iron imbalance among global populations. PLOS ONE, 15 (7). e0235141-. ISSN 1932-6203 DOI: https://doi.org/10.1371/journal.pone.0235141 Item availability may be restricted.

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

Katale, Bugwesa Z; Misinzo, Gerald; Mshana, Stephen E; Chiyangi, Harriet; Campino, Susana; Clark, Taane G; Good, Liam; Rweyemamu, Mark M; Matee, Mecky I; (2020) Genetic diversity and risk factors for the transmission of antimicrobial resistance across human, animals and environmental compartments in East Africa: a review. ANTIMICROBIAL RESISTANCE AND INFECTION CONTROL, 9 (1). 127-. ISSN 2047-2994 DOI: https://doi.org/10.1186/s13756-020-00786-7

Libiseller-Egger, Julian; Phelan, Jody; Campino, Susana; Mohareb, Fady; Clark, Taane G; (2020) Robust detection of point mutations involved in multidrug-resistant Mycobacterium tuberculosis in the presence of co-occurrent resistance markers. PLOS COMPUTATIONAL BIOLOGY, 16 (12). e1008518-. ISSN 1553-734X DOI: https://doi.org/10.1371/journal.pcbi.1008518 Item availability may be restricted.

Napier, Gary; Campino, Susana; Merid, Yared; Abebe, Markos; Woldeamanuel, Yimtubezinash; Aseffa, Abraham; Hibberd, Martin L; Phelan, Jody; Clark, Taane G; (2020) Robust barcoding and identification of Mycobacterium tuberculosis lineages for epidemiological and clinical studies. GENOME MEDICINE, 12 (1). 114-. ISSN 1756-994X DOI: https://doi.org/10.1186/s13073-020-00817-3

Perdigão, João; Caneiras, Cátia; Elias, Rita; Modesto, Ana; Spadar, Anton; Phelan, Jody; Campino, Susana; Clark, Taane G; Costa, Eliana; Saavedra, Maria José; +1 more... Duarte, Aida; (2020) Genomic Epidemiology of Carbapenemase Producing Klebsiella pneumoniae Strains at a Northern Portuguese Hospital Enables the Detection of a Misidentified Klebsiella variicola KPC-3 Producing Strain. MICROORGANISMS, 8 (12). p. 1986. ISSN 2076-2607 DOI: https://doi.org/10.3390/microorganisms8121986

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

Perdigão, João; Modesto, Ana; Pereira, AL; Neto, O; Matos, V; Godinho, A; Phelan, Jody; Charleston, James; Spadar, Anton; de Sessions, Paola Florez; +9 more... Hibberd, Martin; Campino, Susana; Costa, A; Fernandes, F; Ferreira, F; Correia, AB; Gonçalves, Luisa; Clark, Taane G; Duarte, Aida; (2020) Whole-genome sequencing resolves a polyclonal outbreak by extended-spectrum beta-lactam and carbapenem-resistant Klebsiella pneumoniae in a Portuguese tertiary-care hospital. Microbial genomics, 7 (6). ISSN 2057-5858 DOI: https://doi.org/10.1099/mgen.0.000349

Turkiewicz, Anna; Manko, Emilia; Sutherland, Colin J; Diez Benavente, Ernest; Campino, Susana; Clark, Taane G; (2020) Genetic diversity of the Plasmodium falciparum GTP-cyclohydrolase 1, dihydrofolate reductase and dihydropteroate synthetase genes reveals new insights into sulfadoxine-pyrimethamine antimalarial drug resistance. PLOS GENETICS, 16 (12). e1009268-. ISSN 1553-7404 DOI: https://doi.org/10.1371/journal.pgen.1009268

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

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

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

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

Gomez-Gonzalez, Paula J; Andreu, Nuria; Phelan, Jody E; de Sessions, Paola Florez; Glynn, Judith R; Crampin, Amelia C; Campino, Susana; Butcher, Philip D; Hibberd, Martin L; Clark, Taane G; (2019) An integrated whole genome analysis of Mycobacterium tuberculosis reveals insights into relationship between its genome, transcriptome and methylome. SCIENTIFIC REPORTS, 9 (1). 5204-. ISSN 2045-2322 DOI: https://doi.org/10.1038/s41598-019-41692-2

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

He, Yan; Campino, Susana; Diez Benavente, Ernest; Warhurst, David C; Beshir, Khalid B; Lubis, Inke; Gomes, Ana Rita; Feng, Jun; Jiazhi, Wang; Sun, Xiaodong; +4 more... Huang, Fang; Tang, Lin-Hua; Sutherland, Colin J; Clark, Taane G; (2019) Artemisinin resistance-associated markers in Plasmodium falciparum parasites from the China-Myanmar border: predicted structural stability of K13 propeller variants detected in a low-prevalence area. PLoS One, 14 (3). e0213686-. DOI: https://doi.org/10.1371/journal.pone.0213686

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

Jallow, Momodou W; Campino, Susana; Prentice, Andrew M; Cerami, Carla; (2019) A recall-by-genotype study on polymorphisms in the TMPRSS6 gene and oral iron absorption: a study protocol. F1000Research, 8. p. 701. DOI: https://doi.org/10.12688/f1000research.19080.1

Mohring, Franziska; Hart, Melissa Natalie; Rawlinson, Thomas A; Henrici, Ryan; Charleston, James A; Diez Benavente, Ernest; Patel, Avnish; Hall, Joanna; Almond, Neil; Campino, Susana; +5 more... Clark, Taane G; Sutherland, Colin J; Baker, David A; Draper, Simon J; Moon, Robert William; (2019) Rapid and iterative genome editing in the malaria parasite Plasmodium knowlesi provides new tools for P. vivax research. eLife, 8. ISSN 2050-084X DOI: https://doi.org/10.7554/eLife.45829

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

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

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

Ravenhall, Matt; Benavente, Ernest Diez; Sutherland, Colin J; Baker, David A; Campino, Susana; Clark, Taane G; (2019) An analysis of large structural variation in global Plasmodium falciparum isolates identifies a novel duplication of the chloroquine resistance associated gene. Scientific reports, 9 (1). 8287-. ISSN 2045-2322 DOI: https://doi.org/10.1038/s41598-019-44599-0

Ravenhall, Matt; Campino, Susana; Clark, Taane G; (2019) SV-Pop: population-based structural variant analysis and visualization. BMC bioinformatics, 20 (1). 136-. ISSN 1471-2105 DOI: https://doi.org/10.1186/s12859-019-2718-4

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

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

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

Campos, Monica C; Dombrowski, Jamille G; Phelan, Jody; Marinho, Claudio RF; Hibberd, Martin; Clark, Taane G; Campino, Susana; (2018) Zika might not be acting alone: Using an ecological study approach to investigate potential co-acting risk factors for an unusual pattern of microcephaly in Brazil. PloS one, 13 (8). e0201452-. ISSN 1932-6203 DOI: https://doi.org/10.1371/journal.pone.0201452

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

Díez Benavente, E; (2018) Using whole genome sequence data to study genomic diversity and develop molecular barcodes to profile Plasmodium malaria parasites. PhD (research paper style) thesis, London School of Hygiene & Tropical Medicine. DOI: https://doi.org/10.17037/PUBS.04650892

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

Otto, Thomas D; Böhme, Ulrike; Sanders, Mandy; Reid, Adam; Bruske, Ellen I; Duffy, Craig W; Bull, Pete C; Pearson, Richard D; Abdi, Abdirahman; Dimonte, Sandra; +14 more... Stewart, Lindsay B; Campino, Susana; Kekre, Mihir; Hamilton, William L; Claessens, Antoine; Volkman, Sarah K; Ndiaye, Daouda; Amambua-Ngwa, Alfred; Diakite, Mahamadou; Fairhurst, Rick M; Conway, David J; Franck, Matthias; Newbold, Chris I; Berriman, Matt; (2018) Long read assemblies of geographically dispersed Plasmodium falciparum isolates reveal highly structured subtelomeres. Wellcome open research, 3. 52-. ISSN 2398-502X DOI: https://doi.org/10.12688/wellcomeopenres.14571.1

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

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

Sepúlveda, Nuno; Phelan, Jody; Diez-Benavente, Ernest; Campino, Susana; Clark, Taane G; Hopkins, Heidi; Sutherland, Colin; Drakeley, Chris J; Beshir, Khalid B; (2018) Global analysis of Plasmodium falciparum histidine-rich protein-2 (pfhrp2) and pfhrp3 gene deletions using whole-genome sequencing data and meta-analysis. Infection, genetics and evolution, 62. pp. 211-219. ISSN 1567-1348 DOI: https://doi.org/10.1016/j.meegid.2018.04.039

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

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

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; +2 more... Campino, Susana; Clark, Taane G; (2017) Analysis of nuclear and organellar genomes of Plasmodium knowlesi in humans reveals ancient population structure and recent recombination among host-specific subpopulations. PLoS genetics, 13 (9). e1007008-. ISSN 1553-7390 DOI: https://doi.org/10.1371/journal.pgen.1007008

Diez Benavente, Ernest; Ward, Zoe; Chan, Wilson; Mohareb, Fady R; Sutherland, Colin J; Roper, Cally; Campino, Susana; Clark, Taane G; (2017) Genomic variation in Plasmodium vivax malaria reveals regions under selective pressure. PloS one, 12 (5). e0177134-. ISSN 1932-6203 DOI: https://doi.org/10.1371/journal.pone.0177134

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

Goheen, Morgan M; Campino, Susana; Cerami, Carla; (2017) The role of the red blood cell in host defence against falciparum malaria: an expanding repertoire of evolutionary alterations. British journal of haematology, 179 (4). pp. 543-556. ISSN 0007-1048 DOI: https://doi.org/10.1111/bjh.14886 Full text not available from this repository.

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

Gomes, Ana Rita; Ravenhall, Matt; Benavente, Ernest Diez; Talman, Arthur; Sutherland, Colin; Roper, Cally; Clark, Taane G; Campino, Susana; (2017) Corrigendum to "Genetic diversity of next generation antimalarial targets: A baseline for drug resistance surveillance programmes" [Int. J. Parasitol. Drugs and Drug Resist. 7 (2017) 174-180]. International journal for parasitology Drugs and drug resistance, 7 (3). 433-. ISSN 2211-3207 DOI: https://doi.org/10.1016/j.ijpddr.2017.11.001

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

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

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

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

Miles, Alistair; Iqbal, Zamin; Vauterin, Paul; Pearson, Richard; Campino, Susana; Theron, Michel; Gould, Kelda; Mead, Daniel; Drury, Eleanor; O'Brien, John; +12 more... Ruano Rubio, Valentin; MacInnis, Bronwyn; Mwangi, Jonathan; Samarakoon, Upeka; Ranford-Cartwright, Lisa; Ferdig, Michael; Hayton, Karen; Su, Xin-Zhuan; Wellems, Thomas; Rayner, Julian; McVean, Gil; Kwiatkowski, Dominic; (2016) Indels, structural variation, and recombination drive genomic diversity in Plasmodium falciparum. Genome research, 26 (9). pp. 1288-1299. ISSN 1088-9051 DOI: https://doi.org/10.1101/gr.203711.115

Pearson, Richard D; Amato, Roberto; Auburn, Sarah; Miotto, Olivo; Almagro-Garcia, Jacob; Amaratunga, Chanaki; Suon, Seila; Mao, Sivanna; Noviyanti, Rintis; Trimarsanto, Hidayat; +34 more... Marfurt, Jutta; Anstey, Nicholas M; William, Timothy; Boni, Maciej F; Dolecek, Christiane; Hien, Tinh Tran; White, Nicholas J; Michon, Pascal; Siba, Peter; Tavul, Livingstone; Harrison, Gabrielle; Barry, Alyssa; Mueller, Ivo; Ferreira, Marcelo U; Karunaweera, Nadira; Randrianarivelojosia, Milijaona; Gao, Qi; Hubbart, Christina; Hart, Lee; Jeffery, Ben; Drury, Eleanor; Mead, Daniel; Kekre, Mihir; Campino, Susana; Manske, Magnus; Cornelius, Victoria J; MacInnis, Bronwyn; Rockett, Kirk A; Miles, Alistair; Rayner, Julian C; Fairhurst, Rick M; Nosten, Francois; Price, Ric N; Kwiatkowski, Dominic P; (2016) Genomic analysis of local variation and recent evolution in Plasmodium vivax. Nature genetics, 48 (8). pp. 959-964. ISSN 1061-4036 DOI: https://doi.org/10.1038/ng.3599

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

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

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

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

Benavente, Ernest D; Coll, Francesc; Furnham, Nick; McNerney, Ruth; Glynn, Judith R; Campino, Susana; Pain, Arnab; Mohareb, Fady R; Clark, Taane G; (2015) PhyTB: Phylogenetic tree visualisation and sample positioning for M. tuberculosis. BMC Bioinformatics, 16 (1). 155-. ISSN 1471-2105 DOI: https://doi.org/10.1186/s12859-015-0603-3

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

Assefa, Samuel A; Preston, Mark D; Campino, Susana; Ocholla, Harold; Sutherland, Colin J; Clark, Taane G; (2014) estMOI: estimating multiplicity of infection using parasite deep sequencing data. Bioinformatics (Oxford, England), 30 (9). pp. 1292-1294. ISSN 1367-4803 DOI: https://doi.org/10.1093/bioinformatics/btu005

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.

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

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

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

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

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

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

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

Miotto, Olivo; Almagro-Garcia, Jacob; Manske, Magnus; Macinnis, Bronwyn; Campino, Susana; Rockett, Kirk A; Amaratunga, Chanaki; Lim, Pharath; Suon, Seila; Sreng, Sokunthea; +52 more... Anderson, Jennifer M; Duong, Socheat; Nguon, Chea; Chuor, Char Meng; Saunders, David; Se, Youry; Lon, Chantap; Fukuda, Mark M; Amenga-Etego, Lucas; Hodgson, Abraham VO; Asoala, Victor; Imwong, Mallika; Takala-Harrison, Shannon; Nosten, François; Su, Xin-Zhuan; Ringwald, Pascal; Ariey, Frédéric; Dolecek, Christiane; Hien, Tran Tinh; Boni, Maciej F; Thai, Cao Quang; Amambua-Ngwa, Alfred; Conway, David J; Djimdé, Abdoulaye A; Doumbo, Ogobara K; Zongo, Issaka; Ouedraogo, Jean-Bosco; Alcock, Daniel; Drury, Eleanor; Auburn, Sarah; Koch, Oliver; Sanders, Mandy; Hubbart, Christina; Maslen, Gareth; Ruano-Rubio, Valentin; Jyothi, Dushyanth; Miles, Alistair; O'Brien, John; Gamble, Chris; Oyola, Samuel O; Rayner, Julian C; Newbold, Chris I; Berriman, Matthew; Spencer, Chris CA; McVean, Gilean; Day, Nicholas P; White, Nicholas J; Bethell, Delia; Dondorp, Arjen M; Plowe, Christopher V; Fairhurst, Rick M; Kwiatkowski, Dominic P; (2013) Multiple populations of artemisinin-resistant Plasmodium falciparum in Cambodia. Nature genetics, 45 (6). pp. 648-655. ISSN 1061-4036 DOI: https://doi.org/10.1038/ng.2624

Sepúlveda, Nuno; Campino, Susana G; Assefa, Samuel A; Sutherland, Colin J; Pain, Arnab; Clark, Taane G; (2013) A Poisson hierarchical modelling approach to detecting copy number variation in sequence coverage data. BMC genomics, 14 (1). 128-. ISSN 1471-2164 DOI: https://doi.org/10.1186/1471-2164-14-128

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.

Amambua-Ngwa, Alfred; Tetteh, Kevin KA; Manske, Magnus; Gomez-Escobar, Natalia; Stewart, Lindsay B; Deerhake, M Elizabeth; Cheeseman, Ian H; Newbold, Christopher I; Holder, Anthony A; Knuepfer, Ellen; +6 more... Janha, Omar; Jallow, Muminatou; Campino, Susana; Macinnis, Bronwyn; Kwiatkowski, Dominic P; Conway, David J; (2012) Population genomic scan for candidate signatures of balancing selection to guide antigen characterization in malaria parasites. PLoS genetics, 8 (11). e1002992-. ISSN 1553-7390 DOI: https://doi.org/10.1371/journal.pgen.1002992

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

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

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

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

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

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

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

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

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

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

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

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

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

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

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

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

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

Campino, S; Bagot, S; Bergman, M-L; Almeida, P; Sepúlveda, N; Pied, S; Penha-Gonçalves, C; Holmberg, D; Cazenave, P-A; (2005) Genetic control of parasite clearance leads to resistance to Plasmodium berghei ANKA infection and confers immunity. Genes and immunity, 6 (5). pp. 416-421. ISSN 1466-4879 DOI: https://doi.org/10.1038/sj.gene.6364219 Full text not available from this repository.