(1/13) By the end of the Omicron wave, nearly all of us will have glimpsed spike in some form or another—injection, infection, both. I wrote about what that means... and why “widespread exposure” does not necessarily equate to “widespread protection.” theatlantic.com/health/archive…

I wrote about what's next for the pandemic—the decisions we will *have* to make, if we are to bring COVID under control. 1/ theatlantic.com/science/archiv…

We have just released two preprints on the origin of SARS-CoV-2: 1. "The Huanan market was the epicenter of SARS-CoV-2 emergence" zenodo.org/record/6299116…

Let's try this again twitter, -h --help --info 🤓

we're deep into Omicron's reign. does that mean we definitely need an Omicron-specific vaccine? it's complicated for at least three big reasons: timing, Omicron's weirdness, and the vagaries of virus evolution. 1/ theatlantic.com/health/archive…

🧵for our latest preprint on the intrahost evolution of SARS-CoV-2 virus in an immunocompromised individual (60s) with a history of cancer chronically infected for at least 471 days (ongoing) with consistently replicating viruses at a high viral load. 1/n medrxiv.org/content/10.110…

Great to see these API connections!

My colleague Jon Cohen and I spent months investigating GISAID Initiative and the mysterious man behind it, Peter Bogner. Here's what we found. science.org/content/articl…

In a VANITY FAIR story, Katherine Eban oddly misrepresented an investigation into GISAID Initiative and Peter Bogner by Jon Cohen and me; suggested our story was a volley in the lab leak debate; and let Bogner dismiss it as a "hit piece." Here's our response. science.org/do/10.1126/sci…

#GPUalgorithms achieve significant speedup in statistical #phylogenetics, exemplified by estimating West Nile virus introduction timing from 104 genomes using BEAGLE v4.0.0 in BEAST. [co-authored by EVBC members Philippe Lemey's lab Marc Suchard] doi.org/10.1093/bioinf…

My colleagues and I have just posted a "Note about availability of #H5N1 2.3.4.4b consensus sequences from cattle and other species" Virological Posts. Consensus genomes and metadata. virological.org/t/note-about-a…

For a report on our analyses of #H5N1 in cattle, see worobey bsky social

Got milk virus genomes?  (or any H5N1?)  Throw them at usher.bio and see where they land in per-segment trees of tens of thousands of public Influenza A H5N1 sequences!