Raj Rajnarayanan Profile picture
Dec 24 β€’ 20 tweets β€’ 18 min read
#COVID19 #VariantDashboard - #UnitedStates

TOP lineages (15-DAY TRENDS):

14.7% BQ.1.1
11.4% BQ.1
10.3% XBB.1.5πŸ‘€
7.7% BQ.1.22
3.9% XBB.1
2.3% BQ.1.1.3
2.2% BQ.1.2
2.2% BQ.1.3
2.1% BQ.1.12

Tracker: tinyurl.com/mryj4uu7

#OmicronUpdates 12/23/22
1/n Image
Sequence count by US State

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

2/n Image
Granular details -#VariantDashboard #USA #15DayTrends

3/n Image
.@CDCgov updated variant proportions estimates on 12/23/2022 (CDC updates nowcast estimates every Friday)

Several BQ* are circulating at >1% & XBB.1.5* are good candidates to be included in CDC's Nowcast estimates next week!



4/n
The Great Convergence!

Tracked #VariantSoup with key #Spike mutations @ 346, 356, 444-446, 450, 452, 460, 486, 490, 493-494 positions

public.tableau.com/app/profile/ra…

5/n
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…

6/n
#Hospital #Capacity - (by State/Division)

All hospitalizations not just COVID-19

public.tableau.com/app/profile/ra…

7/n
#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…

8/n
Status of the latest #COVID19 Wave in #NewYork #BellwetherState

XBB.1.5 is the top circulating lineage in NY

Top Lineages (#15DAYTrends):

XBB.1.5 (29.1%)πŸ‘€πŸš€
BQ.1.1 (13.8%)
XBB.1 (9.6%)
BQ.1 (9.2%)
BQ.1.1.3 (2.6%)
BQ.1.1.4 (2.1%)
XBB (2.0%)
XBB.2 (1.8%)

9/n ImageImage
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…

10/n
BQ* Hotspots - #USA #15DayTrends

11/n Image
Recombinant lineage hotspots - #USA #15DayTrends

12/n Image
Tracking the current #COVID19 wave, variant soup and #Hospitalizations in #California

BQ.1.22 is the top circulating lineage in CA

13/n ImageImage
Tracking the current #COVID19 wave, variant soup and #Hospitalizations in #NorthCarolina

BQ.1.1 and BQ.1 are the top circulating lineages in NC

14/n ImageImage
Tracking the current #COVID19 wave, variant soup and #Hospitalizations in #Maryland

BQ.1.1, BQ.1.22 and BQ.1 are the top circulating lineages in MD

15/n ImageImage
Tracking the current #COVID19 wave, variant soup and #Hospitalizations in #Michigan

BQ.1.22 is the top circulating lineage in MI

16/n ImageImage
Tracking the current #COVID19 wave, variant soup and #Hospitalizations in #Texas

BQ.1.1 and BQ.1.22 are the top circulating lineages in TX

17/n ImageImage
Tracking the current #COVID19 wave, variant soup and #Hospitalizations in #Nebraska

BQ.1.1 is the top circulating lineage in NE

18/n ImageImage
Tracking the current #COVID19 wave, variant soup and #Hospitalizations in #Arizona

BQ.1.12 is the top circulating lineage in AZ

19/n ImageImage
Tracking the current #COVID19 wave, variant soup and #Hospitalizations in #Connecticut

XBB.1.5 is the top circulating lineage in CT!

20/n ImageImage

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More from @RajlabN

Dec 26
#COVID19updates #China 12/25/2022

BF.7 seems to be the top circulating lineage in #China based on #SARSCoV2 sequences uploaded in GISAID ImageImage
25 sequences were uploaded from #Beijing, #InnerMongolia and #Guangdong
BF.7's from China have a unique mutations Spike:C1243F & ORF1a:V274L Image
Read 4 tweets
Dec 26
#COVID19 #VariantDashboard - #UnitedStates

TOP lineages (15-DAY TRENDS):

16.8% BQ.1.1
16.2% XBB.1.5πŸ‘€πŸš€
11.0% BQ.1
5.5% BQ.1.22
4.4% XBB.1
2.3% BQ.1.1.4
2.1% BQ.1.1.3
2.1% BQ.1.3
1.6% BQ.1.2

Tracker: tinyurl.com/mryj4uu7

#OmicronUpdates 12/25/22
1/n Image
Sequence count by US State

New York has submitted a huge share of sequences with specimen collection dates in the last 15 days.

2/n Image
Granular details -#VariantDashboard #USA #15DayTrends

3/n Image
Read 16 tweets
Dec 25
#COVID19 #VariantDashboard - #UnitedStates

TOP lineages (15-DAY TRENDS):

16.1% BQ.1.1
13.8% XBB.1.5πŸ‘€β¬†οΈ
11.3% BQ.1
6.4% BQ.1.22
4.3% XBB.1
2.2% BQ.1.1.4
2.0% BQ.1.1.3
1.9% BQ.1.2
1.9% BQ.1.3

Tracker: tinyurl.com/mryj4uu7

#OmicronUpdates 12/24/22
1/n Image
Sequence count by US State

New York has submitted a huge share of sequences with specimen collection dates in the last 15 days.

2/n Image
Granular details -#VariantDashboard #USA #15DayTrends

3/n Image
Read 17 tweets
Dec 24
Initiated a conversation with #ChatGPT @OpenAI about the β€œ#Future of #Science #PostPandemic”

1/n Image
Coordinated global response & continued R&D

2/n Image
Cross-sector approaches and collaboration between scientists & policy makers

3/n Image
Read 6 tweets
Dec 23
#SARSCoV2 #VariantProportions - #USA |12/23/22

Top lineages (per @CDCgov #Nowcast estimates):

35.7% BQ.1.1
27.4% BQ.1
18.3% XBBβ¬†οΈπŸ‘€
6.9% BA.5
3.9% BF.7
3.8% BN.1
1.1% BA.5.2.6
1.0% BA.2.75
and others

covid.cdc.gov/covid-data-tra…

1/n Image
BQ.1, BQ.1.1 hotspots per nowcast estimates

3/n Image
Read 7 tweets
Nov 30
#COVID19 #VariantDashboard - #UnitedStates
TOP lineages (15-DAY TRENDS):

11.4% BQ.1
10.8% BQ.1.1
4.8% BA.5.2.1
4.8% BQ.1.22
4.1% BA.5.2
2.9% XBB.1
2.4% BQ.1.3
2.4% BF.7
2.4% BA.4.6
2.2% BQ.1.12

Tracker: tinyurl.com/mryj4uu7

#OmicronUpdates 11/29/22
1/n
Sequence count by US State

Share of sequences with specimen collection dates in the last 15 days.

New York has submitted a big share of sequences this period

2/n
Granular details -#VariantDashboard #USA #15DayTrends

3/n
Read 14 tweets

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