Tracking Covid-19 Using Genomics

Genomic epidemiology offers high resolution estimates of serial intervals for COVID-19

JE Stockdale, K Susvitasari, P Tupper, B Sobkowiak, N Mulberry, A Gonçalves da Silva, AE Watt, NL Sherry, C Minko, BP Howden, CR Lane, C Colijn

2023-12-01

Serial intervals – the time between symptom onset in infector and infectee – are a fundamental quantity in infectious disease cont..

Bioinformatic investigation of discordant sequence data for SARS-CoV-2: insights for robust genomic analysis during pandemic surveillance

SE Zufan, KA Lau, A Donald, T Hoang, CSP Foster, C Sikazwe, T Theis, WD Rawlinson, SA Ballard, TP Stinear, BP Howden, AV Jennison, T Seemann

2023-01-01

The COVID-19 pandemic has necessitated the rapid development and implementation of whole-genome sequencing (WGS) and bioinformatic..

The importance of utilizing travel history metadata for informative phylogeographical inferences: a case study of early SARS-CoV-2 introductions into Australia

AF Porter, L Featherstone, CR Lane, NL Sherry, ML Nolan, D Lister, T Seemann, S Duchene, BP Howden

2023-01-01

Inferring the spatiotemporal spread of severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2) via Bayesian phylogeography ha..

State-wide genomic epidemiology investigations of COVID-19 in healthcare workers in 2020 Victoria, Australia: Qualitative thematic analysis to provide insights for future pandemic preparedness

AE Watt, NL Sherry, P Andersson, CR Lane, S Johnson, M Wilmot, K Horan, M Sait, SA Ballard, C Crachi, DJ Beck, C Marshall, MA Kainer, R Stuart, C McGrath, JC Kwong, P Bass, PG Kelley, A Crowe, S Guy

2022-08-01

Background: COVID-19 has affected many healthcare workers (HCWs) globally. We performed state-wide SARS-CoV-2 genomic epidemiologi..

Second SARS-CoV-2 infections twelve months after initial infections in Australia, confirmed by genomic analysis

C Minko, F Haile, J Gu, D Kidd, M Cross, M Baptista, S Crouch, AB Pierce, RL Stuart, CR Lane, S Johnson, NL Sherry, M Sait, K Horan, SA Ballard, M Wilmot, A Watt, C Crachi, T Seemann, BP Howden

2022-03-07

Genomics-informed responses in the elimination of COVID-19 in Victoria, Australia: an observational, genomic epidemiological study

CR Lane, NL Sherry, AF Porter, S Duchene, K Horan, P Andersson, M Wilmot, A Turner, S Dougall, SA Johnson, M Sait, A Gonçalves da Silva, SA Ballard, T Hoang, TP Stinear, L Caly, V Sintchenko, R Graham, J McMahon, D Smith

2021-08-01

Background: A cornerstone of Australia's ability to control COVID-19 has been effective border control with an extensive supervise..

Surveillance for SARS-CoV-2 variants of concern in the Australian context

P Andersson, NL Sherry, BP Howden

2021-06-01