Darren Martin

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Arvind VarsaniArizona State UniversityVerified email at asu.edu
Philippe RoumagnacCIRAD, UMR PHIM, MontpellierVerified email at cirad.fr
pierre lefeuvreUMR PVBMT - CiradVerified email at cirad.fr
Ed RybickiEmeritus Director of Biopharming Research Unit, University of Cape TownVerified email at uct.ac.za
Jean-Michel LETTCIRADVerified email at cirad.fr
Dionne Shepherd (Miles)Prior Research Officer, University of Cape Town (left academia in 2014)Verified email at uct.ac.za
Prof. Gordon HarkinsUniversity of the Western CapeVerified email at uwc.ac.za
Brejnev MuhirePrincipal Data Scientist at GSKVerified email at gsk.com
Simona KrabergerArizona State UniversityVerified email at asu.edu
Ben MurrellDepartment of Microbiology, Tumor and Cell Biology, Karolinska InstitutetVerified email at ki.se
Michael GoldenStudent, University of OxfordVerified email at zoo.ox.ac.uk
Carolyn WilliamsonUniversity of Cape TownVerified email at uct.ac.za
Philippe LemeyFull Professor, KU LeuvenVerified email at kuleuven.be
Sergei L Kosakovsky PondProfessor of Biology, Institute for Genomics and Evolutionary Medicine, Temple UniversityVerified email at temple.edu
Tulio de OliveiraStellenbosch UniversityVerified email at sun.ac.za
David PosadaProfessor of Genetics, CINBIO, University of Vigo, SpainVerified email at uvigo.es
Eric van der WaltR&D Manager, Roche Sequencing Solutions Cape TownVerified email at kapabiosystems.com
Houriiyah TegallyUniversity of KwaZulu-Natal (UKZN), KwaZulu-Natal Research, Innovation & Sequencing Platform (KRISP)Verified email at stu.ukzn.ac.za
Arjun KhoosalUniversity of Cape TownVerified email at myuct.ac.za
Richard LessellsSenior Infectious Diseases Specialist, University of KwaZulu-NatalVerified email at ukzn.ac.za

Darren Martin

University of Cape Town

Verified email at uct.ac.za - Homepage

Virology virus evolution genetic recombination geminiviruses sequence analysis software


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RDP4: Detection and analysis of recombination patterns in virus genomes DP Martin, B Murrell, M Golden, A Khoosal, B Muhire Virus evolution 1 (1), vev003, 2015	3194	2015
Detection of a SARS-CoV-2 variant of concern in South Africa H Tegally, E Wilkinson, M Giovanetti, A Iranzadeh, V Fonseca, ... Nature 592, 438 - 443, 2021	2879*	2021
RDP3: a flexible and fast computer program for analyzing recombination DP Martin, P Lemey, M Lott, V Moulton, D Posada, P Lefeuvre Bioinformatics 26 (19), 2462-2463, 2010	1851	2010
SDT: a virus classification tool based on pairwise sequence alignment and identity calculation BM Muhire, A Varsani, DP Martin PloS one 9 (9), e108277, 2014	1666	2014
Rapid epidemic expansion of the SARS-CoV-2 Omicron variant in southern Africa R Viana, S Moyo, DG Amoako, H Tegally, C Scheepers, CL Althaus, ... Nature 603 (7902), 679-686, 2022	1637	2022
RDP: detection of recombination amongst aligned sequences D Martin, E Rybicki Bioinformatics 16 (6), 562-563, 2000	1631	2000
RDP2: recombination detection and analysis from sequence alignments DP Martin, C Williamson, D Posada Bioinformatics 21 (2), 260-262, 2005	1087	2005
Altered TMPRSS2 usage by SARS-CoV-2 Omicron impacts infectivity and fusogenicity B Meng, A Abdullahi, IATM Ferreira, N Goonawardane, A Saito, I Kimura, ... Nature 603 (7902), 706-714, 2022	1059*	2022
ICTV Virus Taxonomy Profile: Geminiviridae FM Zerbini, RW Briddon, A Idris, DP Martin, E Moriones, J Navas-Castillo, ... Journal of general virology 98 (2), 131-133, 2017	924	2017
A modified bootscan algorithm for automated identification of recombinant sequences and recombination breakpoints DP Martin, D Posada, KA Crandall, C Williamson AIDS Research & Human Retroviruses 21 (1), 98-102, 2005	916	2005
Revision of Begomovirus taxonomy based on pairwise sequence comparisons JK Brown, FM Zerbini, J Navas-Castillo, E Moriones, R Ramos-Sobrinho, ... Archives of virology 160, 1593-1619, 2015	863	2015
The phylogenetic handbook: a practical approach to phylogenetic analysis and hypothesis testing AMV M Salemi, P Lemey The phylogenetic handbook, 2009	832*	2009
Emergence of SARS-CoV-2 omicron lineages BA. 4 and BA. 5 in South Africa H Tegally, M Moir, J Everatt, M Giovanetti, C Scheepers, E Wilkinson, ... Nature medicine 28 (9), 1785-1790, 2022	721*	2022
Gene-wide identification of episodic selection B Murrell, S Weaver, MD Smith, JO Wertheim, S Murrell, A Aylward, ... Molecular biology and evolution 32 (5), 1365-1371, 2015	566	2015
Plant virus metagenomics: advances in virus discovery MJ Roossinck, DP Martin, P Roumagnac Phytopathology 105 (6), 716-727, 2015	439	2015
RDP5: a computer program for analyzing recombination in, and removing signals of recombination from, nucleotide sequence datasets DP Martin, A Varsani, P Roumagnac, G Botha, S Maslamoney, T Schwab, ... Virus Evolution 7 (1), veaa087, 2021	436	2021
Sixteen novel lineages of SARS-CoV-2 in South Africa H Tegally, E Wilkinson, RJ Lessells, J Giandhari, S Pillay, N Msomi, ... Nature medicine 27, 440 - 446, 2021	409	2021
The spread of tomato yellow leaf curl virus from the Middle East to the world P Lefeuvre, DP Martin, G Harkins, P Lemey, AJA Gray, S Meredith, ... PLoS pathogens 6 (10), e1001164, 2010	367	2010
A genome-wide pairwise-identity-based proposal for the classification of viruses in the genus Mastrevirus (family Geminiviridae) B Muhire, DP Martin, JK Brown, J Navas-Castillo, E Moriones, FM Zerbini, ... Archives of virology 158, 1411-1424, 2013	361	2013
Recombination patterns in aphthoviruses mirror those found in other picornaviruses L Heath, E Van Der Walt, A Varsani, DP Martin Journal of virology 80 (23), 11827-11832, 2006	327	2006

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