David Welch

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Alexei J. DrummondProfessor of Computational Biology, University of AucklandVerified email at cs.auckland.ac.nz
Joep de LigtLead Data @ Hartwig Medical Foundation (NL)Verified email at hartwigmedicalfoundation.nl
Jordan DouglasUniversity of AucklandVerified email at auckland.ac.nz
Nigel FrenchDistinguished Professor of Infectious Disease Epidemiology and Public Health, Massey University.Verified email at massey.ac.nz
Jemma L GeogheganProfessor; Webster Chair, University of Otago; Rutherford Discovery FellowVerified email at otago.ac.nz
Tanja StadlerETH ZurichVerified email at env.ethz.ch
Xiaoyun RenInstitute of Environmental Science and ResearchVerified email at esr.cri.nz
Alexandra "Sasha" GavryushkinaResearch fellow at Canterbury UniversityVerified email at canterbury.ac.nz
Timothy G VaughanDepartment of Biosystems Science and Engineering, ETH Zürich, SwitzerlandVerified email at bsse.ethz.ch
Colin R SimpsonVictoria University of WellingtonVerified email at vuw.ac.nz
Sue HuangInstitute of Environmental Science and ResearchVerified email at esr.cri.nz
Tina ToniImperial College London, Massachusetts Institute of TechnologyVerified email at mit.edu
Michael P H StumpfProfessor of Theoretical Systems Biology, University of MelbourneVerified email at unimelb.edu.au
Geoff NichollsAssociate Professor of Statistics, University of OxfordVerified email at stats.ox.ac.uk
Andrew SporleiNZight Analytics LtdVerified email at auckland.ac.nz
Michael BakerUniversity of OtagoVerified email at otago.ac.nz
David HunterProfessor of Statistics, Penn State UniversityVerified email at psu.edu
Fábio Kuriki MendesAssistant Professor, Louisiana State UniversityVerified email at lsu.edu
Edward C HolmesUniversity of SydneyVerified email at sydney.edu.au
Christophe GroendykeVerified email at rmu.edu

David Welch

Senior Lecturer, School of Computer Science, University of Auckland Waipapa Taumata Rau

Verified email at auckland.ac.nz - Homepage

Bayesian statistics epidemiology phylogenetics networks sampling algorithms


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Approximate Bayesian computation scheme for parameter inference and model selection in dynamical systems T Toni, D Welch, N Strelkowa, A Ipsen, MPH Stumpf Journal of the Royal Society Interface 6 (31), 187-202, 2009	1835	2009
Bayesian inference of sampled ancestor trees for epidemiology and fossil calibration A Gavryushkina, D Welch, T Stadler, AJ Drummond PLoS computational biology 10 (12), e1003919, 2014	342	2014
Bayesian total-evidence dating reveals the recent crown radiation of penguins A Gavryushkina, TA Heath, DT Ksepka, T Stadler, D Welch, AJ Drummond Systematic biology 66 (1), 57-73, 2017	316	2017
Efficient Bayesian inference under the structured coalescent TG Vaughan, D Kühnert, A Popinga, D Welch, AJ Drummond Bioinformatics 30 (16), 2272-2279, 2014	151	2014
Genomic epidemiology reveals transmission patterns and dynamics of SARS-CoV-2 in Aotearoa New Zealand JL Geoghegan, X Ren, M Storey, J Hadfield, L Jelley, S Jefferies, ... Nature communications 11 (1), 6351, 2020	145	2020
From words to dates: water into wine, mathemagic or phylogenetic inference? Q Atkinson, G Nicholls, D Welch, R Gray Transactions of the Philological Society 103 (2), 193-219, 2005	144	2005
Bayesian inference for contact networks given epidemic data C Groendyke, D Welch, DR Hunter Scandinavian Journal of Statistics 38 (3), 600-616, 2011	94	2011
Genomic Evidence of In-Flight Transmission of SARS-CoV-2 Despite Predeparture Testing T Swadi, JL Geoghegan, T Devine, C McElnay, J Sherwood, P Shoemack, ... Emerging Infectious Diseases 27 (3), 2021	87*	2021
Statistical inference to advance network models in epidemiology D Welch, S Bansal, DR Hunter Epidemics 3 (1), 38-45, 2011	84	2011
A network-based analysis of the 1861 Hagelloch measles data C Groendyke, D Welch, DR Hunter Biometrics 68 (3), 755-765, 2012	82	2012
Protocols for sampling viral sequences to study epidemic dynamics JC Stack, JD Welch, MJ Ferrari, BU Shapiro, BT Grenfell Journal of the Royal Society Interface 7 (48), 1119-1127, 2010	64	2010
Estimating Epidemic Incidence and Prevalence from Genomic Data TG Vaughan, GE Leventhal, DA Rasmussen, AJ Drummond, D Welch, ... Molecular Biology and Evolution, 2019	53	2019
Inferring ancestral recombination graphs from bacterial genomic data TG Vaughan, D Welch, AJ Drummond, PJ Biggs, T George, NP French Genetics 205 (2), 857-870, 2017	53	2017
Use of genomics to track coronavirus disease outbreaks, New Zealand JL Geoghegan, J Douglas, X Ren, M Storey, J Hadfield, OK Silander, ... Emerging Infectious Diseases 27 (5), 1317, 2021	45	2021
Real-time genomics for tracking severe acute respiratory syndrome coronavirus 2 border incursions after virus elimination, New Zealand J Douglas, JL Geoghegan, J Hadfield, R Bouckaert, M Storey, X Ren, ... Emerging infectious diseases 27 (9), 2361, 2021	43	2021
Phylodynamics reveals the role of human travel and contact tracing in controlling the first wave of COVID-19 in four island nations J Douglas, FK Mendes, R Bouckaert, D Xie, CL Jiménez-Silva, ... Virus evolution 7 (2), veab052, 2021	39	2021
COVID-19 vaccine strategies for Aotearoa New Zealand: a mathematical modelling study T Nguyen, M Adnan, BP Nguyen, J de Ligt, JL Geoghegan, R Dean, ... The Lancet Regional Health–Western Pacific 15, 2021	26	2021
Genomic epidemiology of Delta SARS-CoV-2 during transition from elimination to suppression in Aotearoa New Zealand L Jelley, J Douglas, X Ren, D Winter, A McNeill, S Huang, N French, ... Nature Communications 13 (1), 4035, 2022	25	2022
Demographic inference under the coalescent in a spatial continuum S Guindon, H Guo, D Welch Theoretical population biology 111, 43-50, 2016	24	2016
Is network clustering detectable in transmission trees? D Welch Viruses 3 (6), 659, 2011	22	2011

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