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Slack / Private Message Drop, p.85 [SLACK_000299] · slack_pm:msg:00868

Page text: p.85 · original PDF

Date: 2020-06-18 17:41
Type: chat message · slack
recipient: Kristian G. Andersen, Robert F. Garry, Andrew Rambaut
speaker: Edward C. Holmes

Recipients on this medium are inferred from channel membership, not per-message addressing.

Still makes no sense because the Liu et al. paper come out before the pandemic.

In context

A single line often inverts meaning once you see what it answers, so neighbouring messages are always shown.

2020-06-18 17:32 Edward C. Holmes open

But the pangolin sequence is only 'highly identical' at the amino acid level. Not synonymous sites...falls in the expected place at those sites.
2020-06-18 17:34 Kristian G. Andersen open

Yeah, agreed - but if what she's saying is actually true, then that's definitely strange - that is *not* how the authors describe their data and samples
2020-06-18 17:34 Kristian G. Andersen open

I'll get the manuscript from her
2020-06-18 17:37 Edward C. Holmes open

Let me see what I can do on this. I'm working with both groups.
2020-06-18 17:41 Edward C. Holmes

Still makes no sense because the Liu et al. paper come out before the pandemic.
2020-06-18 17:41 Kristian G. Andersen open

"Liu et al. paper come out before the pandemic" > Yup.
2020-06-18 17:42 Edward C. Holmes open

Published online October 24th 2019 if I remember.
2020-06-18 17:43 Kristian G. Andersen open

Yup - definitely well before the outbreak began (ohhhh, but what about all those parked cars, huh...?)
2020-06-18 17:51 Edward C. Holmes open

I can easily imagine that the Liu et al. data has influenced the assembly in the later papers but (i) why would this only impact nonsynonymous sites and (ii) how could it possibly have produced the human sequence when no one knew what that was? Liu et al. is clearly a 'blind' study. I've just emailed Tommy if he can assemble the same RBD without the Liu et al. data and/or if it has been Sanger sequenced. The other group have a second paper on the clinicalmanifestations that I am helping them with. They've sequenced the virus again. I've also asked if they can assemble the same RBD without the Liu et al. data and/or if it has been Sanger sequenced.

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