Matthew Hall
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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
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
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
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
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
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
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
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
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
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
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
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
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
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
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
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
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
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
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
Transmission trees on a known pathogen phylogeny: Enumeration and sampling
MD Hall, C Colijn
Molecular biology and evolution 36 (6), 1333-1343, 2019
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Articles 1–20