Thread by @RajlabN

#COVID19 #VariantDashboard - #UnitedStates

Holiday season - Low seq count this 15day period!

TOP lineages (#15DAYTRENDS):

24.0% XBB.1.5
11.4% BQ.1.1
9.5% BQ.1.22
9.2% BQ.1
3.6% XBB.1
2.6% BQ.1.1.3

Tracker: tinyurl.com/mryj4uu7
#OmicronUpdates 01/03/2023

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Sequence count by US State

New York and California have submitted a large share of sequences with specimen collection dates in the last 15 days.

Appears like a push-pull between BQ.1.1. vs XBB.1.5 as more sequences from outside NE USA are being submitted.

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Granular details -#VariantDashboard #USA #15DayTrends

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.@CDCgov updated variant proportions estimates on 12/30/2022 (updated every Friday)

Several BQ* are circulating at >1% especially BQ.1.1.3/4, BQ.1.22 is a good candidate to be included in CDC's Nowcast estimates next week!

https://twitter.com/RajlabN/status/1608877190632071168

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#Global #VariantSoup 01/03/2023

Top lineages with at least 5 key convergent #Spike mutations (#30DayTrends):

BQ.1.1 (24.27%)
BQ.1 (8.75%)
BQ.1.22 (4.09%)
XBB.1 (3.99%)
XBB.1.5 (2.96%)👀
CH.1.1 (2.91%)👀
BN.1.3 (2.23%)
BQ.1.2 (2.16%)
BQ.1.1.4 (1.98%)
BQ.1.1.20 (1.75%)

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Predicted Immune Escape and ACE2 binding of top lineages in USA (relative to BA.2)

Bivalent boosters (OG/Omicron.BA.5) will potentially protect the boosted from getting severe disease/hospitalizations.

Please get #boosted ASAP!

public.tableau.com/app/profile/ra…

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#Hospital #Capacity - (by State/Division)

All hospitalizations not just COVID-19

public.tableau.com/app/profile/ra…

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#COVID19 #Hospitalizations in the #UnitedStates

Please get #boosted (especially > 50 yr old and immune compromised) and #MaskUP!

Hospital Tracker (by States, by age group): public.tableau.com/app/profile/ra…

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Status of the latest #COVID19 Wave in #NewYork #BellwetherState

XBB.1.5 is the dominant #SARSCoV2 lineage in NY

Top Lineages (#15DAYTrends):

XBB.1.5 (54.9%)👀🚀
BQ.1.1 (9.8%)⬇️
XBB.1 (6.0%)
BQ.1 (5.2%)
BQ.1.1.4 (2.6%)
BQ.1.1.3 (2.2%)
BQ.1.3 (1.9%)
..
CH.1.1 (1%)

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Rise of highly immune evasive XBB* family of lineages especially XBB.1.5 (Key mutation: Spike F486P) in NY is concerning

fortune.com/well/2022/11/0…

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BQ* Hotspots - #USA #15DayTrends

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Recombinant lineage hotspots - #USA #15DayTrends

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Adding BN* & CH.1.1* (BA.2.75's sub-lineages) to the watch list

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Tracking the current #COVID19 wave, variant soup and #Hospitalizations 👀 in #Massachusetts

2 sequences with sample collection dates in the last 15 days (1 each of XBB.1 & XBB.1.5).

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more on #Massachusetts's XBB.1.5 wave

bostonglobe.com/2022/12/28/met…

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Tracking the current #COVID19 wave, variant soup and #Hospitalizations 👀 in #Connecticut

XBB.1.5 is the top circulating lineage in CT

[low sequence count]

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Tracking the current #COVID19 wave, variant soup and #Hospitalizations in #NewJersey

XBB.1.5 is the top circulating lineage in NJ

[Low sequence count]

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Tracking the current #COVID19 wave, variant soup and #Hospitalizations in #Virginia

BQ.1.1 & XBB.1.5 are the top circulating lineages in VA

[low sequence count]

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Tracking the current #COVID19 wave, variant soup and #Hospitalizations in #Arkansas

Only one sequence with specimen collection dates within the last 15 days is available (BQ.1.22)

[low sequence count]

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