By partnering with West Nile virus surveillance labs across the country, the WestNile 4K Project is planning to sequence more than 4,000 virus genomes to reconstruct a high definition picture of West Nile virus spread and evolution during the last 20 years in the United States. The data that they generate will be immediately released and, along with other entomological data, will be used to uncover local transmission dynamics. As little progress has been made in effectively controlling West Nile virus outbreaks since its emergence, their goal is to use fine-scale transmission networks revealed through virus genomics to better design targeted control measures.


The samples from San Diego county were provided by Nikos Garfield and Saran Grewal from the San Diego County Vector Control Program. The samples from all the other counties in California, including Sacramento-Yolo and Kern were provided by Ying Fang and Chris Barker from the Barker Lab, University of California, Davis and Sarah Wheeler from Sacramento-Yolo Mosquito and Vector Control Program.

The samples from WA were provided by Krisztian Magori from the Eastern Washington University, Amy Salamone, Wayne Clifford and David Kangiser from the Washington State Department of Health.

The samples from NH were provided by Denise Bolton, Abigail Mathewson, Carolyn Fredett, Amy Kutschke and Rebecca Lovell at the New Hampshire Division of Public Health Services, Department of Health and Human Services.


Below is a table showing the number of sequenced genomes by state.


Disclaimer. Please note that this data is released as work in progress by the WestNile 4K Project and should be considered preliminary. If you intend to include any of these data in publications, please let us know – otherwise please feel free to download and use without restrictions. We have shared this data with the hope that people will download and use it, as well as scrutinize it so we can improve our methods and analyses. Please contact us if you have any questions or comments.

Andersen Lab
The Scripps Research Institute
La Jolla, CA, USA


GitHub Commits




Nate Grubaugh
Yale School of Public Health

Ryan Smith
Iowa State University

WestNile 4K Collaborators