| Patients’, clinicians’ and the research communities’ priorities for treatment research: there is an important mismatch S Crowe, M Fenton, M Hall, K Cowan, I Chalmers Research involvement and engagement 1 (1), 1-10, 2015 | 184 | 2015 |
| PHYLOSCANNER: inferring transmission from within-and between-host pathogen genetic diversity C Wymant, M Hall, O Ratmann, D Bonsall, T Golubchik, M de Cesare, ... Molecular biology and evolution 35 (3), 719-733, 2018 | 77 | 2018 |
| Epidemic Reconstruction in a Phylogenetics Framework: Transmission Trees as Partitions of the Node Set M Hall, M Woolhouse, A Rambaut PLOS Computational Biology 11 (12), e1004613, 2015 | 76 | 2015 |
| Phylogenetic tools for generalized HIV-1 epidemics: findings from the PANGEA-HIV methods comparison O Ratmann, EB Hodcroft, M Pickles, A Cori, M Hall, S Lycett, C Colijn, ... Molecular biology and evolution 34 (1), 185-203, 2017 | 54 | 2017 |
| Revealing the micro-scale signature of endemic zoonotic disease transmission in an African urban setting H Bourhy, E Nakouné, M Hall, Nouvellet, Pierre, A Lepelletier, C Talbi, ... PLOS Pathogens 12 (4), e1005525, 2016 | 44 | 2016 |
| The effects of sampling strategy on the quality of reconstruction of viral population dynamics using Bayesian skyline family coalescent methods: A simulation study MD Hall, MEJ Woolhouse, A Rambaut Virus Evolution 2 (1), vew003, 2016 | 42 | 2016 |
| Reconstructing geographical movements and host species transitions of foot-and-mouth disease virus serotype SAT 2 MD Hall, NJ Knowles, J Wadsworth, A Rambaut, MEJ Woolhouse MBio 4 (5), 2013 | 41 | 2013 |
| Viral genetic variation accounts for a third of variability in HIV-1 set-point viral load in Europe F Blanquart, C Wymant, M Cornelissen, A Gall, M Bakker, D Bezemer, ... PLoS biology 15 (6), e2001855, 2017 | 36 | 2017 |
| Easy and accurate reconstruction of whole HIV genomes from short-read sequence data with shiver C Wymant, F Blanquart, T Golubchik, A Gall, M Bakker, D Bezemer, ... Virus evolution 4 (1), vey007, 2018 | 34 | 2018 |
| Phylogeography of Rift Valley Fever virus in Africa and the Arabian Peninsula S Abdallah M, A Townsend Peterson, M Hall PLOS Neglected Tropical Diseases 11 (1), e0005226, 2017 | 29 | 2017 |
| Inferring HIV-1 transmission networks and sources of epidemic spread in Africa with deep-sequence phylogenetic analysis O Ratmann, MK Grabowski, M Hall, T Golubchik, C Wymant, ... Nature communications 10 (1), 1-13, 2019 | 26 | 2019 |
| Spatiotemporal analysis of the genetic diversity of seal influenza A (H10N7) virus, northwestern Europe R Bodewes, S Zohari, JS Krog, MD Hall, TC Harder, TM Bestebroer, ... Journal of virology 90 (9), 4269-4277, 2016 | 24 | 2016 |
| Phylogenetic methods inconsistently predict the direction of HIV transmission among heterosexual pairs in the HPTN 052 cohort R Rose, M Hall, AD Redd, S Lamers, AE Barbier, SF Porcella, ... The Journal of infectious diseases 220 (9), 1406-1413, 2019 | 17 | 2019 |
| Using genomics data to reconstruct transmission trees during disease outbreaks MD Hall, MEJ Woolhouse, A Rambaut Revue scientifique et technique (International Office of Epizootics) 35 (1), 287, 2016 | 17 | 2016 |
| Modelling the impact of co-circulating low pathogenic avian influenza viruses on epidemics of highly pathogenic avian influenza in poultry S Nickbakhsh, MD Hall, I Dorigatti, SJ Lycett, P Mulatti, I Monne, A Fusaro, ... Epidemics 17, 27-34, 2016 | 15 | 2016 |
| Quantifying HIV transmission flow between high-prevalence hotspots and surrounding communities: a population-based study in Rakai, Uganda O Ratmann, J Kagaayi, M Hall, T Golubchick, G Kigozi, X Xi, C Wymant, ... The Lancet HIV 7 (3), e173-e183, 2020 | 13 | 2020 |
| A Comprehensive Genomics Solution for HIV Surveillance and Clinical Monitoring in Low-Income Settings D Bonsall, T Golubchik, M de Cesare, M Limbada, B Kosloff, ... Journal of clinical microbiology 58 (10), 2020 | 10 | 2020 |
| Improved characterisation of MRSA transmission using within-host bacterial sequence diversity MD Hall, MTG Holden, P Srisomang, W Mahavanakul, V Wuthiekanun, ... Elife 8, e46402, 2019 | 10 | 2019 |
| The evolution and phylodynamics of serotype A and SAT2 foot-and-mouth disease viruses in endemic regions of Africa S Lycett, VN Tanya, M Hall, DP King, S Mazeri, V Mioulet, NJ Knowles, ... Scientific reports 9 (1), 1-11, 2019 | 9 | 2019 |
| Transmission trees on a known pathogen phylogeny: Enumeration and sampling MD Hall, C Colijn Molecular biology and evolution 36 (6), 1333-1343, 2019 | 8 | 2019 |
Christophe FraserOxford Big Data Institute, Nuffield Department of Medicine, University of OxfordVerified email at bdi.ox.ac.uk
