Chat message

Slack / Private Message Drop, p.761 · slack_pm:msg:07970

Date: 2021-05-07 14:42 (hour precision)
Type: chat message · slack
recipient: Robert F. Garry, Edward C. Holmes, Andrew Rambaut
speaker: Kristian G. Andersen
Topics: Natural origin / zoonotic spillover

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

Yeah, alpha, beta, gamma could work - we talked about the need for different "levels" and the ability to move between groups (e.g., "CA" variant moving from VOC (which it should never have been...) down to a lower classification). The PHE names are indeed bad - I always have to cross-reference back to the table also displaying the pangolin names (but as you say, we need to label constellations, not necessarily lineages).

Extracted statements

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Statement	Grade	Attribution	Stance
The PHE names are indeed bad - I always have to cross-reference back to the table also displaying the pangolin names (but as you say, we need to label constellations, not necessarily lineages).	own voice, substantive	speaker_own	instructs

Statement

Grade

Attribution

Stance

The PHE names are indeed bad - I always have to cross-reference back to the table also displaying the pangolin names (but as you say, we need to label constellations, not necessarily lineages).

own voice, substantive

speaker_own

instructs

In context

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

2021-05-07 14:42 Kristian G. Andersen open

Laura/Karthik might suggest a couple of others join too, but this is the core team.
2021-05-07 14:42 Andrew Rambaut open

OK. Easily done. Invitations sent.
2021-05-07 14:42 Andrew Rambaut open

By the way, WHO is planning to call them 'alpha', 'beta', 'gamma' etc. which is probably a good a system as any butwe could still influence this.
2021-05-07 14:42 Andrew Rambaut open

I hate the PHE names because they look so similar.
2021-05-07 14:42 Kristian G. Andersen

Yeah, alpha, beta, gamma could work - we talked about the need for different "levels" and the ability to move between groups (e.g., "CA" variant moving from VOC (which it should never have been...) down to a lower classification). The PHE names are indeed bad - I always have to cross-reference back to the table also displaying the pangolin names (but as you say, we need to label constellations, not necessarily lineages).
2021-05-07 14:42 Andrew Rambaut open

Yes - that is what we can put in the JSON definition files. We could have current PHE classification, WHO, CDC etc.Linking to lineages (possibly more than one - but probably not) where it is found.
2021-05-07 15:05 Andrew Rambaut open

We also planned to have a big table of the individual mutations with information about evidence for phenotypic effect etc. (some spike ones are there in 'mutations.csv' but we have all been to busy to work on this). The COG mutationdashboard has a lot: http://sars2.cvr.gla.ac.uk/cog-uk/
2021-05-07 15:08 Kristian G. Andersen open

Oh, nice - we have been talking about data layers like that too - a lot of interest on the NIH to incorporate immunological data (which, I agree, is key).

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