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### Project short name:
CovidCellTypes
### Primary Wrangler:
Ami
### Secondary Wrangler:
Irene
### Associated files
**Google Drive**
https://docs.google.com/spreadsheets/d/1WiPlkBzBZBrCu4SbOt2uGC…
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## Problem statement
We received an updated LIVD to the Reportstream inbox. The LIVD table needs to be uploaded into ReportStream.
## What you need to know
[LIVD-SARS-CoV-2-2024-06-13 PRIME.xlsx](h…
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It looks like we have another date with wrong data, **United Kingdom** has no increase according to this data, but the actual source is telling us a different story:
Total cases: 1391
Total deaths…
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From branch 9 of https://github.com/sars-cov-2-variants/lineage-proposals/issues/1253
JN.1+C6145T+T22928C(S:F456L)
GISAID query: C6145T, T22928C,T22926C,T3565C,-2782,-5184,-18453,-G17334T,-A161G…
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Just noticed a GBW sample from a traveller from Egypt carrying S:F306L , it turns out to be a small lineage already sampled in a few countries. Better proposing it although it should not be fast.
the…
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From https://github.com/sars-cov-2-variants/lineage-proposals/issues/1253
Branch 44: 10 seqs, last sample was on 19 April 2024
[usher](https://nextstrain.org/fetch/genome.ucsc.edu/trash/ct/singleSu…
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Defining mutations:
KP.2 > T22795G > S:Q173E> C1609T > T14946C, S:Q173E (C22079G)
Query: C1609T,T14946C, T3565C
Countries: 9 (Likely emerged in France)
Tree:
https://nextstrain.org/fetch/gen…
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![image](https://github.com/cov-lineages/pango-designation/assets/78371872/c4a671cf-8060-4a53-a471-36b082d3f538)
tree: https://nextstrain.org/fetch/genome.ucsc.edu/trash/ct/subtreeAuspice1_genome_3d8…
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From branch 11 of https://github.com/sars-cov-2-variants/lineage-proposals/issues/1253
JN.1.39+T22928C(S:F456L)
GISAID query: G2782T,T22926C,T22928C,-T111C,-23601,-C1594T,-26873, -10369
GISAID …
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From branch 4 of https://github.com/sars-cov-2-variants/lineage-proposals/issues/1502
JN.1+Orf1a:G993D,A656V+C26013T+S:S31del
Query: del21653_21655,C26013T, C2232T,G3243A
No. of seqs: 24 (China 8 G…