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Slack / Private Message Drop, p.467 [SLACK_000681] · slack_pm:msg:04851

Page text: p.467 · original PDF

Date
2021-01-31 15:04
Type
chat message · slack
recipient
Kristian G. Andersen, Robert F. Garry, Edward C. Holmes
speaker
Andrew Rambaut

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They (Tulio & co) are using some hokey bioinformatics that initially was very poor at indels.

In context

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  1. 2021-01-31 15:01 Kristian G. Andersen open
    As far as I can tell - all are 241-243 ("LLA")
  2. 2021-01-31 15:02 Kristian G. Andersen open
    ... but holy moly, these genomes are messy... Hmmm.
  3. 2021-01-31 15:02 Robert F. Garry open
    The main reference got that wrong originally and I fell for the trap. I need to update the virological post - which I amplanning on.
  4. 2021-01-31 15:02 Robert F. Garry open
    Ok now I'm confused...
  5. 2021-01-31 15:04 Andrew Rambaut
    They (Tulio & co) are using some hokey bioinformatics that initially was very poor at indels.
  6. 2021-01-31 15:04 Kristian G. Andersen open
    Yeah, they're tricky. Definitely LLA (241-243) though - just checked the Danish genomes.
  7. 2021-01-31 15:06 Kristian G. Andersen open
    Here's what I have - I think somewhat accurate, although I'm not convinced some of the other mutations are really there... [shared file(s): Screen Shot 2021-01-31 at 3.05.48 PM.png]
  8. 2021-01-31 15:07 Robert F. Garry open
    Somthings off Virus name: hCoV-19/Denmark/DCGC-32298/2021 Accession ID: EPI_ISL_869302 Type: betacoronavirus GISAID Clade GH PANGO Lineage B.1.351 (version: 2021-01-22) AA Substitutions Spike A243del, Spike A701V, Spike D80A, Spike D215G, Spike D614G, Spike E484K, Spike K417N, Spike L18F, Spike L242del, Spike L244del, Spike N501Y, E P71L, N P13S, N T205I, NS3 Q57H, NS3 S171L, NSP2 T85I, NSP3 K837N, NSP5 K90R, NSP6 F108del, NSP6 G107del, NSP6 S106del, NSP12 P323L, NSP14 F240V, NSP14 V14L
  9. 2021-01-31 15:08 Kristian G. Andersen open
    Yeah, those DEL assignments are wrong...

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