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Nextstrain

Nextstrain

Nextstrain is an open-source project working to provide real-time tracking of pathogen evolution.

Nextstrain is an open-source project to harness the scientific and public health potential of pathogen genome data. They provide an updated view of publicly available data alongside powerful analytic and visualization tools for use by the community. Their goal is to aid epidemiological understanding and improve outbreak response.

Nextstrain's philosophy is to track pathogen phylogenies in order to track genomic mutations in pathogens, find related infections and reconstruct a phylogeny to learn about epidemiological phenomena such as spatial spread, introduction timings and epidemic growth rate. They also look for actionable inferences they feel are hindered through the traditional scientific publishing practices. Their open online platform is meant to help inform public health interventions and synthesize data across research groups globally. The website aims to provide a real-time snapshot of evolving pathogen populations and interactive data visualizations to virologists, epidemiologists, public health officials and citizen scientists.

Covid-19

Nextstrain is working to collect and incorporate data on the Covid-19 and nCoV genomes as soon as they are publicly available and to provide analysis and situation reports as quickly as they are available. These reports are collected globally and the information is tracked. They built a database on the Genomic epidemiology of Covid-19 with data provided from GISAID.

Timeline

People

Name
Role
LinkedIn

Allison Black

Nextstrain Builder

Anderson Brito

Nextstrain Builder

Barney Potter

Nextstrain Builder

Charlton Callender

Nextstrain Builder

Colin Megill

Nextstrain Builder

Emma Hodcroft

Nextstrain Builder

James Hadfield

Nextstrain Builder

John Huddleston

Nextstrain Builder

Jover Lee

Nextstrain Builder

Kairsten Fay

Nextstrain Builder

Louise Moncla

Nextstrain Builder

Misja Ilcisin

Nextstrain Builder

Nate Grubaugh

Nextstrain Builder

Pavel Sagulenko

Nextstrain Builder

Richard Neher

Nextstrain Builder

Sidney Bell

Nextstrain Builder

Thomas Sibley

Nextstrain Builder

Trevor Bedford

Nextstrain Builder

Further reading

Title
Author
Link
Type
Date

Nextstrain: real-time tracking of pathogen evolution

James Hadfield, Colin Megill, Sidney M Bell, John Huddleston, Barney Potter, Charlton Callender, Pavel Sagulenko, Trevor Bedford, Richard A Neher

Journal

May 22, 2018

Documentaries, videos and podcasts

Title
Date
Link

Companies

Company
CEO
Location
Products/Services

News

Title
Author
Date
Publisher
Description
Adam Rogers
February 8, 2021
Wired
As potentially more dangerous variants of Covid-19 spread, scientists are taking a crack at giving them clearer names that'll help in the fight.
April 15, 2020
clinicaltrials.gov
To Access the Egyptian COVID-19 Whole Genome by NGS and Compare to the International Worldwide Database - Full Text View.

References

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