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Slack / Private Message Drop, p.762 [SLACK_000976] · slack_pm:msg:07973

Date: 2021-05-07 15:08
Type: chat message · slack
recipient: Robert F. Garry, Edward C. Holmes, Andrew Rambaut
speaker: Kristian G. Andersen

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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).

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 Andrew Rambaut open

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

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

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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