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Pavitra Roychoudhury Profile picture
Pavitra Roychoudhury
@pavitrarc
Bioinformatics, viral evolution, math models | @UWVirology @fredhutch | Loves science, gizmos, bad jokes, dogs | 🇮🇳→🇳🇬→🇬🇭→🇸🇬→🇺🇸
Dec 17, 2021 • 4 tweets • 3 min read
SGTF update for @UWVirology 12/17. We are now at ~37% likely Omicron.

Also check out @trvrb's analysis that incorporates this data as well as data from @seattleflustudy @lea_starita for WA Our numbers continue to track closely with CT @NathanGrubaugh
Dec 31, 2020 • 7 tweets • 3 min read
Why aren't we sequencing more in the US? Cost is a big factor. Some others in our lab's experience: reagent shortages, staffing, prioritization and access to instruments, space, and again $$. 1/ We sequenced our first WA sample on 28-Feb and continued to ramp up sequencing through March and April. At one point we had deposited ~15% of all sequences that were available at that time. Got liquid handlers to speed things up. Then the reagent shortages started to hit. 2/
Mar 29, 2020 • 7 tweets • 4 min read
Articles like these coming out of India scare me.

First, there are only *two* full SARS-CoV-2 genomes from India, both from Kerala. Unless there's additional data that hasn't been published, I'm not sure how one can say anything about the strains circulating locally. 1/ No sources have been cited for any of the claims being made. 2/