Items where Author or Contributor is "Phelan, Jody E"

Up a level
Export as [feed] Atom [feed] RSS
Group by: Year | Item Type | Full Text
Jump to: 2020 | 2019 | 2018 | 2017 | 2016 | 2015
Number of items: 35.

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
[img]

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
[img]

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.
[img]

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
[img]

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
[img]

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
[img]

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
[img]

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
[img]

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
[img]

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
[img]

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
[img]

2018

Coll, Francesc; Phelan, Jody; Hill-Cawthorne, Grant A; Nair, Mridul B; Mallard, Kim; Ali, Shahjahan; Abdallah, Abdallah M; Alghamdi, Saad; Alsomali, Mona; Ahmed, Abdallah O; +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
[img] [img]

Herman, Lou S; Fornace, Kimberly; Phelan, Jody; Grigg, Matthew J; Anstey, Nicholas M; William, Timothy; Moon, Robert W; Blackman, Michael J; Drakeley, Chris J; Tetteh, Kevin KA; (2018) Identification and validation of a novel panel of Plasmodium knowlesi biomarkers of serological exposure. PLoS neglected tropical diseases, 12 (6). e0006457-. ISSN 1935-2727 DOI: https://doi.org/10.1371/journal.pntd.0006457
[img]

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
[img]

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
[img]

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
[img]

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
[img]

2017

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.

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
[img]

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.

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
[img]

de Oliveira, Thais C; Rodrigues, Priscila T; Menezes, Maria José; Gonçalves-Lopes, Raquel M; Bastos, Melissa S; Lima, Nathália F; Barbosa, Susana; Gerber, Alexandra L; Loss de Morais, Guilherme; Berná, Luisa; +5 more... Phelan, Jody; Robello, Carlos; de Vasconcelos, Ana Tereza R; Alves, João Marcelo P; Ferreira, Marcelo U; (2017) Genome-wide diversity and differentiation in New World populations of the human malaria parasite Plasmodium vivax. PLoS neglected tropical diseases, 11 (7). e0005824-. ISSN 1935-2727 DOI: https://doi.org/10.1371/journal.pntd.0005824
[img]

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; +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
[img]

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
[img]

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
[img]

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
[img]

2015

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
[img]

This list was generated on Fri Aug 14 06:39:55 2020 BST.