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Sequencing Archives | Andersen Lab

graphical abstractPublications

Study on B.1.1.7 out in Cell

Our study investigating the spread of the B.1.1.7 SARS-CoV-2 variant first discovered in the UK has been published in the journal Cell. Together with our colleagues at the San Diego-based company Helix, we used testing data, genomics, and modeling to answer two simple questions - when was B.1.1.7 introduced into the US and how is it currently spreading in this country?…
April 9, 2021
narrativeDataNarrative

Narrative 1 | Genomic Epi in San Diego

To gain insights into the the emergence, spread, and transmission of COVID-19 in our community, we are working with a large number of partners to sequence SARS-CoV-2 samples from infected patients in San Diego. This is our first preliminary analysis. (more…)
June 18, 2020
Cell abstractPublications

Zika surveillance study in Cell

Our study investigating smoldering 'hidden' outbreaks of Zika in the Americas was published on the cover of Cell. In this paper we used travel surveillance and genomic epidemiology to answer a simple question - "in 2017, was the epidemic over?". The short answer, is no - read the rest of the study for the long answer. The Zika epidemic in…
August 23, 2019
figure 3Data

Hidden Zika outbreak

Summary: Using local and travel-associated case reporting from American and European public health systems, we identified an unreported Zika outbreak in Cuba during 2017. Virus sequencing from travelers revealed that the Zika outbreak in Cuba was sparked by multiple introductions of the virus from elsewhere in the Caribbean and Central America during 2016 that persisted into 2017. The recent Zika virus…
July 3, 2018
holmes nature commentaryPublications

Pandemics: Focus on surveillance

Over the past 15 years, outbreaks caused by viruses such as Ebola, SARS, and Zika have cost governments billions of US dollars. Combined with a perception among scientists, health workers and citizens that responses to outbreaks have been inadequate, this has fueled what seems like a compelling idea. Namely, that if researchers can identify the next pandemic virus before the…
June 11, 2018
2017-Nature-celebrationPublications

Zika papers in Nature

In a series of papers in the journals Nature and Nature Protocols, we used Zika virus sequencing from patients and mosquitos to show how the virus has spread across South America and into Florida. This work was performed as a large (huge!) collaboration of national and international institutions, which was made possible because of open science and open data. (more…)
May 25, 2017
Cell abstractPublications

Ebola paper in Cell

In a recent study published in Cell together with colleagues from UMass Worcester and the Broad, we show how a single mutation that occurred during the 2013-2016 Ebola virus disease epidemic in West Africa increased the ability of the virus to infect human cells. The mutation occurred in the Ebola virus glycoprotein and is located in the receptor binding domain of…
November 22, 2016
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