Chat message

Slack / Private Message Drop, p.1001 [SLACK_001215] · slack_pm:msg:10441

Date: 2021-09-21 09:00
Type: chat message · slack
mentioned: Robert F. Garry
recipient: Robert F. Garry, Edward C. Holmes, Andrew Rambaut
speaker: Kristian G. Andersen

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Here's what I suggest we do: • Make (spike) alignments with SC1, SARSr-CoVs, RaTG13(+close friends), Pangos, BANAL, SHC014, rs4237, SC2 • Mark 'key' sites based on what's in the grant - @Robert Garry, can you please help highlight the N-linked glycans based on Wuhan Hu-1 coordinates• Check to see if there's anything odd between SC2, basal viruses, and SC1• Look at e.g., codon usage at those sites if anything stands out• Cross-check with how those sites have evolved during the pandemic

In context

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

2021-09-21 08:34 Andrew Rambaut open

They would have selected it from candidates by genome sequencing it. I guess they would have seen an ACE-2 binding RBD and thought that is the one to try an FCS in?
2021-09-21 08:37 Andrew Rambaut open

Or they just were selecting viruses by seeing if they could get any to culture and then worry about genome sequencing?
2021-09-21 08:48 Kristian G. Andersen open

The former - which is the approach they describe in the grant.
2021-09-21 08:49 Kristian G. Andersen open

Culture is very challenging so I don't think that approach makes sense.
2021-09-21 09:00 Kristian G. Andersen

Here's what I suggest we do: • Make (spike) alignments with SC1, SARSr-CoVs, RaTG13(+close friends), Pangos, BANAL, SHC014, rs4237, SC2 • Mark 'key' sites based on what's in the grant - @Robert Garry, can you please help highlight the N-linked glycans based on Wuhan Hu-1 coordinates• Check to see if there's anything odd between SC2, basal viruses, and SC1• Look at e.g., codon usage at those sites if anything stands out• Cross-check with how those sites have evolved during the pandemic
2021-09-21 09:01 Andrew Rambaut open

And stay off email
2021-09-21 09:02 Andrew Rambaut open

Or carefully curate some emails for the FOI records
2021-09-21 09:07 Robert F. Garry open

OK I'm on my bit...
2021-09-21 09:07 Kristian G. Andersen open

Exactly - let's dig around a little and then start an email chain. I'm in Zoom calls most of the day, but I'll dive in in the afternoon.

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