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GenSpectrum

About Us

An interactive platform to help scientists and public health professionals query and analyze pathogen sequences. The core team is based at the cEvo group and CBG group at ETH Zurich and at the Swiss Institute of Bioinformatics (SIB); in addition, we are grateful for our many contributors from around the globe: you can find our team here. We are funded by ETH Zurich, the US CDC's Office of Advanced Molecular Detection (OAMD) and NIH*) through the Pathogen Data Network.
This resource is supported as a whole or in part by the National Institute Of Allergy And Infectious Diseases of the National Institutes of Health under grant n°U24AI183840, awarded to the SIB Swiss Institute of Bioinformatics. The content is solely the responsibility of the authors and does not necessarily represent the official views of the National Institutes of Health.

Open Source Tooling

Code is available on GitHub, with customizable components to build your own dashboards. We use data from the International Nucleotide Sequence Database Collaboration (INSDC) and Pathoplexus, read more about our data processing here.

Pathogens

SARS-CoV-2

Influenza A

H5N1

H1N1pdm

H3N2

Influenza B

Victoria

West Nile

RSV-A

RSV-B

Mpox

Ebola Sudan

Ebola Zaire

Crimean-Congo Hemorrhagic Fever

Dengue 1

Dengue 2

Dengue 3

Dengue 4

Measles

Swiss Wastewater

How to cite

If this dashboard has been useful for you, we would be grateful if you cite the following paper:
Chen, C., Nadeau, S., Yared, M., Voinov, P., Ning, X., Roemer, C. & Stadler, T. "CoV-Spectrum: Analysis of globally shared SARS-CoV-2 data to Identify and Characterize New Variants" Bioinformatics (2021); doi: 10.1093/bioinformatics/btab856 .
If you queried data through our LAPIS API, please consider citing:
Chen, C., Taepper, A., Engelniederhammer, F., Kellerer, J., Roemer, C. & Stadler, T. "LAPIS is a fast web API for massive open virus sequencing data" Bioinformatics (2021); doi: 10.1186/s12859-023-05364-3 .

Contact

Feedback, suggestions, bug reports and active contributions are highly welcome, please create an issue in our Github repository . For general questions, please contact Chaoran Chen (chaoran.chen@bsse.ethz.ch). For media requests, please reach out to ETH Zurich Media Relations (mediarelations@hk.ethz.ch). A list of all team members can be found here .
Enabled by data from:INSDC, Pathoplexus and WISE