Raj Rajnarayanan Profile picture
Feb 1 16 tweets 16 min read
#COVID19 #VariantDashboard - #UnitedStates

TOP lineages (#15DAYTRENDS):

44.6% XBB.1.5
17.2% BQ.1.1
3.7% BQ.1
2.9% XBB.1
1.7% BQ.1.1.4
1.2% BQ.1.2
1.2% BQ.1.3
1.1% BQ.1.1.18

Tracker: tinyurl.com/mryj4uu7
Updated: 01/31/2023

1/n Image
Sequence count by US State

#NorthCarolina, #NewYork, #California and #Washington have submitted a big share of sequences

XBB.1.5 stays strong at the top spot and is establishing a clear foot print outside NE USA!

2/n Image
USA Airport surveillance update #15DayTrends

97 sequences from 6 US States (#California, #NewYork, #Washington, #NewJersey, #Georgia and #Virginia)

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

XBB.1.5 is surging ahead, leaving the rest of the swarm behind!

4/n Image
.@CDCgov updated variant proportions estimates on 01/27/2023 (updated every Friday)

CH.1.1 makes an entry @ 1.5% in the CDC Variant Dashboard

XBB.1.5 is leading at the top!



5/n
Top circulating #SARSCOV2 lineages around the world 01/11 to 01/31/23 (#20DayTrends):

BQ.1.1 (18.4%)
XBB.1.5 (13.5%)
CH.1.1 (6.1%)
BQ.1 (3.7%)
XBF (2.4%)
XBB.1 (2.3%)
BA.5.2.48 (2.3%)
BF.7 (2.0%)
BQ.1.9 (1.9%)
CH.1.1.1 (1.7%)
BQ.1.1.20 (1.3%)
BQ.1.1.13 (1.2%)

6/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…

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

All hospitalizations not just COVID-19

public.tableau.com/app/profile/ra…

8/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…

9/n
Status of the latest #COVID19 Wave in #NewYork

XBB.1.5 is still the top circulating lineage in NY

10/n ImageImage
Circulating recombinant lineages - USA #15DayTrends

XBB.1.5 is still the top recombinant in circulation!

11/n ImageImage
Tracking circulating #SARSCoV2 lineages, Cases, #COVID19 #hospitalizations 👀 in #California

XBB.1.5 is the top circulating lineage in CA

Top circulating lineages

XBB.1.5 (30.6%)👀
BQ.1.1 (15.7%)
BQ.1 (4.2%)
BQ.1.1.32 (4.2%)
BQ.1.28 (2.8%)
BQ.1.25.1 (2.3%)
XBB (2.3%)

12/n ImageImage
Weekly Trends in Number of COVID-19 Deaths and Weekly Case Rate in The United States Reported to CDC, per 100,000 population.

covid.cdc.gov/covid-data-tra…

13/n Image
Tracking circulating #SARSCoV2 lineages, Cases, #COVID19 #hospitalizations 👀 in #Arizona

Only 5 sequences with sample collection dates in the last 15 days (1 XBB.1.5 & 4 BQ.1.1*)

14/n Image
Tracking circulating #SARSCoV2 lineages, Cases, #COVID19 #hospitalizations in #Texas

XBB.1.5 is the top circulating lineage in TX

Top circulating lineages

XBB.1.5 (34.3%)👀
BQ.1.1 (20.6%)
XBB.1 (12.3%)

15/n ImageImage
Tracking circulating #SARSCoV2 lineages, Cases, #COVID19 #hospitalizations in #NorthCarolina

XBB.1.5 is the top circulating lineage in NC

Top circulating lineages

XBB.1.5 (41.1%)👀
BQ.1.1 (20.0%)
BQ.1 (6.3%)
XBB.1 (3.7%)

16/n ImageImage

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More from @RajlabN

Feb 3
#COVID19 #VariantDashboard - #UnitedStates

TOP lineages (#15DAYTRENDS):

48.0% XBB.1.5⬆️👀
14.2% BQ.1.1
5.5% XBB.1
4.1% BQ.1
1.4% BQ.1.1.4
1.4% CH.1.1
1.2% BQ.1.3
1.1% BQ.1.1.5

Tracker: tinyurl.com/mryj4uu7
Updated: 02/02/2023

1/n Image
Sequence count by US State

#California, #NorthCarolina, #NewYork, #NewJersey and #Massachusetts have submitted a big share of sequences

XBB.1.5 stays strong at the top spot and is establishing a clear foot print outside NE USA!

2/n Image
USA Airport surveillance update #15DayTrends

125 sequences from 6 US States (#California, #NewYork, #Washington, #NewJersey, #Georgia and #Virginia)

A good amount of XBB.1.5 detected via airport surveillance

3/n Image
Read 15 tweets
Feb 3
Tracking #SARSCoV2 #Lineages - Globally

Top lineages -#20DayTrends (#G20):

BQ.1.1 (18.9%)
XBB.1.5 (18.7%)👀^
CH.1.1 (5.3%)👀
BQ.1 (3.7%)
XBB.1 (2.7%)
BA.5.2.48 (2.3%)
XBF (1.7%)

^more sequences from USA in this period

Tracker: public.tableau.com/app/profile/ra…

Updated 02/02/2023 Image
Granular details #Global #20DayTrends

This analysis includes all designated #SARSCoV2 sequences submitted to GISAID with sample collection dates on or after 01/12/2023 Image
USA has submitted a lion's share of sequences with sample collection dates on or after 01/12/2023 ...followed by #Canada, #UnitedKingdom, #Austria, #Japan, #Denmark, #Germany, #France, #China, #Australia, #Italy Image
Read 8 tweets
Feb 2
#COVID19 #UglyPeak update

#SARSCoV2 Test Positivity Rate: 33.5% (slight very high and early signs of trending up again)

Source: @Walgreens Image
Treat this like an election exit poll - includes tests performed at Walgreens sites nationwide

1) We are still riding the #UglyPeak
2) Potentially many missed and unreported cases
3) Pandemic is far from over!
Walgreen's Variant proportions data (variants as of 01/23/2023) is consistent with #COVID19 Variant Dashboard #15DayTrends - Image
Read 5 tweets
Feb 2
#COVID19 #VariantDashboard - #UnitedStates

TOP lineages (#15DAYTRENDS):

38.6% XBB.1.5
16.3% BQ.1.1
6.5% XBB.1
5.1% BQ.1
1.7% BQ.1.1.4
1.5% CH.1.1
1.4% BQ.1.1.32
1.3% BQ.1.3
1.2% BQ.1.1.5

Tracker: tinyurl.com/mryj4uu7
Updated: 02/01/2023

1/n Image
Sequence count by US State

#California and #NorthCarolina have submitted a big share of sequences

XBB.1.5 stays strong at the top spot and is establishing a clear foot print outside NE USA!

2/n Image
USA Airport surveillance update #15DayTrends

82 sequences from 6 US States (#California, #NewYork, #Washington, #NewJersey, #Georgia and #Virginia)

3/n Image
Read 17 tweets
Jan 7
#COVID19 #VariantDashboard - #UnitedStates

Interesting tug or war between BQ.1.1 vs XBB.1.5

TOP lineages (#15DAYTRENDS):

23.3% BQ.1.1
15.5% XBB.1.5
10.8% BQ.1
2.9% BQ.1.1.4
2.8% XBB.1
2.1% BQ.1.1.3

Tracker: tinyurl.com/mryj4uu7
#OmicronUpdates 01/06/2023

1/n
Sequence count by US State

Large share of sequences from outside NE States with specimen collection dates in the last 15 days.

The proportion of BQ.1*/BQ.1.1* >> XBB.1.5 outside NE states.

XBB.1.5 is expected to outcompete all other circulating lineages soon.

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

3/n
Read 24 tweets
Jan 6
#SARSCoV2 #VariantProportions - #USA |01/06/23

Interesting tug of war between BQ.1.1 vs XBB.1.5

As expected new @CDCgov #Nowcast estimates
BQ.1.1 (34.4%) > XBB.1.5* (27.6%)

covid.cdc.gov/covid-data-tra…

1/n
Use the "nowcast off" button in the CDC Variant Proportions dashboard to get a clear picture of the variant spread

covid.cdc.gov/covid-data-tra…

3/n
Read 7 tweets

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