Nextstrain

Nextstrain is a collaboration between researchers in Seattle, United States[1] and Basel, Switzerland[2] which provides a collection of open-source tools for visualising the genetics behind the spread of viral outbreaks.[3]

Its aim is to support public health measures and surveillance by facilitating understanding of the spread and evolution of pathogens. The Nextstrain platform was begun in 2015.[2] Code developed by Nextstrain is made publicly available, via, for example github.com and its data is available and viewable in accessible form via the pages at the website.[4]

Applications

According to their website, the Nextstrain team maintains an up-to-date genomic analysis of each of the following pathogens:[5]

Covid-19 pandemic

Nextstrain and its results have been widely quoted during the COVID-19 pandemic.[6][7][8][9]

Award

In May 2020, Nextstrain and Trevor Bedford (Associate professor, Fred Hutchinson Cancer Research Center)[10] received a Webby Special Achievement Award for the web tool.[11]

See also

  • GISAID
  • PANGOLIN
  • List of COVID-19 simulation models

References

  1. ↑ Richards, Sarah Elizabeth (26 March 2020). "How coronavirus mutations can track its spread—and disprove conspiracies". www.nationalgeographic.com. Archived from the original on 24 December 2020. Retrieved 25 December 2020.
  2. 1 2 "Spread of a novel SARS-CoV-2 variant across Europe in summer 2020". www.unibas.ch. 29 October 2020. Archived from the original on 16 December 2020. Retrieved 25 December 2020.
  3. ↑ Reza, Nosheen (6 April 2020). "nextstrain RNA, DNA, and COVID-19]". earlycareervoice.professional.heart.org. Archived from the original on 25 January 2021. Retrieved 25 December 2020.
  4. ↑ Hadfield, James; Megill, Colin; Bell, Sidney; Huddleston, John; Potter, Barney; Callender, Charlton; et al. (2018-05-22). Kelso, Janet (ed.). "Nextstrain: real-time tracking of pathogen evolution". Bioinformatics. 34 (23): 4121–4123. doi:10.1093/bioinformatics/bty407. ISSN 1367-4803. PMC 6247931. PMID 29790939.
  5. ↑ "Nextstrain Real-time tracking of pathogen evolution Section 'Explore pathogens". nextstrain.org. Archived from the original on 26 December 2020. Retrieved 26 December 2020.
  6. ↑ Drake, John (19 Dec 2020). "The Science Behind London's Christmas Coronavirus Lockdown". www.forbes.com. Archived from the original on 22 December 2020. Retrieved 25 December 2020.
  7. ↑ Hodcroft, Emma B.; Zuber, Moira; Nadeau, Sarah; Comas, Iñaki; González Candelas, Fernando; Stadler, Tanja; Neher, Richard A. (28 October 2020). "Emergence and spread of a SARS-CoV-2 variant through Europe in the summer of 2020". medRxiv : The Preprint Server for Health Sciences. doi:10.1101/2020.10.25.20219063. PMC 7709189. PMID 33269368. Archived from the original on 8 December 2021. Retrieved 10 March 2021.
  8. ↑ "Swiss National COVID-19 Science Task Force". Retrieved 2021-12-21.
  9. ↑ "Nextstrain, Sequencing & the SARS-CoV-2 Pandemic" (PDF). 2020. Retrieved 2021-12-21.
  10. ↑ "40 Under 40 Healthcare". fortune.com. Archived from the original on 20 October 2020. Retrieved 29 December 2020.
  11. ↑ "Webby Special Achievement". winners.webbyawards.com. Archived from the original on 10 October 2021. Retrieved 29 December 2020.


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