Infectious Disease Genomics
Ongoing Studies
Outbreak.info genomic reports: scalable and dynamic surveillance of SARS-CoV-2 variants and mutations, Nature Methods, February 2023
Outbreak.info Research Library: a standardized, searchable platform to discover and explore COVID-19 resources, Nature Methods, February 2023
Regional connectivity drove bidirectional transmission of SARS-CoV-2 in the Middle East during travel restrictions, Nature Communications, August 2022
Predicting the evolution of the Lassa virus endemic area and population at risk over the next decades, Nature Communications, September 2022
The Huanan Seafood Wholesale Market in Wuhan was the early epicenter of the COVID-19 pandemic, Science, July 2022
Wastewater sequencing reveals early cryptic SARS-CoV-2 variant transmission, Nature, July 2022
Emergence of an early SARS-CoV-2 epidemic in the United States, Cell, September 2021
Ebola virus transmission initiated by relapse of systemic Ebola virus disease, New England Journal of Medicine 2021
Emergence and rapid transmission of SARS-CoV-2 B.1.1.7 in the United States, Cell 2021
The proximal origin of SARS-CoV-2, Nature Medicine 2020
Travel suirveillance and genomics uncover a hidden Zika outbreak during the waning epidemic, Cell 2019
Precision epidemiology for infectious disease control, Nature Medicine 2019
An amplicon-based sequencing framework for accurately measuring intrahost virus diversity using PrimalSeq and iVar, Genome Biology 2019
Tracking virus outbreaks in the twenty-first century, Nature Microbiology 2018
Pandemics: spend on surveillance, not prediction, Nature 2018
Genomic insights into Zika virus emergence and spread, Cell 2018
Genomic epidemiology reveals multiple introductions of Zika virus into the United States, Nature 2017
Establishment and cryptic transmission of Zika virus in Brazil and the Americas, Nature 2017
Zika Virus Evolution and Spread in The Americas, Nature 2017
Protocol Multiplex PCR Method for MinION and Illumina Sequencing of Zika and Other Virus Genomes Directly From Clinical Samples, Nature Protocols 2017
Virus genomes reveal factors that spread and sustained the Ebola epidemic, Nature 2017
Ebola Virus Glycoprotein with Increased Infectivity Dominated the 2013-2016 Epidemic, Cell 2016
The Evolution Of Ebola Virus: Insights From The 2013-2016 Epidemic, Nature 2016
Roots, Not Parachutes: Research Collaborations Combat Outbreaks, Cell 2016
Navigating the Zika panic, F1000Research 2016
Clinical Sequencing Uncovers Origins and Evolution of Lassa Virus, Cell 2015
Ebola Virus Epidemiology, Transmission and Evolution during Seven Months in Sierra Leone, Cell 2015
We have the best view yet of COVID-19's origins. What should we do about it?, Vox 2022
New research points to Wuhan market as pandemic origin, The New York Times 2022
Wuhan market was epicenter of pandemic's start, studies suggest, Nature 2022
San Diego County detects its first Omicron case, The San Diego Union-Tribune 2021
Covid origins: Scientists weigh up evidence over virus's origins, BBC News 2021
Coronavirus almost certainly came from an animal, not a lab leak, top scientists argue, CNN 2021
U.K. coronavirus variant spreading rapidly through United States, study finds, The Washington Post 2021
Scripps Research and UCSD wing $2.5M CDC contract to track COVID-19 spread across San Diego, The San Diego Union-Tribune 2020
No, COVID-19 coronavirus was not bioengineered. Here's the research that debunks that idea, Forbes 2020
Zika was soaring across Cuba. Few outside the country knew., The New York Times 2019
Infected travelers reveal Cuba's 'hidden' Zika outbreak, Science 2019
Cuba's Untold Zika Outbreak Uncovered, Nature 2019
How Zika Conquered The Americas, The Atlantic 2017
Epidemiology: Molecular mapping of Zika spread, Nature 2017
San Diego Lab Takes ‘Open Science’ Approach To Tracking Zika’s Arrival In US, KPBS 2017
How Ebola Adapted to Us, The Atlantic 2016
The Next Pandemic, Genome 2016