Share this page!

Raj Rajnarayanan Profile picture
Twitter logo
Mar 17 • 6 tweets • 4 min read
#SARSCoV2 #VariantProportions - #USA |03/17/23

New @CDCgov #Nowcast estimates

Top circulating lineages:

XBB.1.5 (90.2%)
BQ.1.1 (3.5%)⬇️
XBB (2.5%)
XBB.1.5.1 (2.2%)
BQ.1 (0.7%)⬇️
CH.1.1 (0.5%)

covid.cdc.gov/covid-data-tra…

1/n Image
A closer look at nowcast estimates (modeled projections)

2/n Image
Over all trends are consistent with #15DayTrends (based on sequences uploaded in the public databases)

XBB.1.5 is still the dominant lineage

Expected XBB.1.9.1 and XBB.1.5.13 to feature in the CDC dashboard variant line up today..



3/n
XBB.1.5 hotspots per CDC Nowcast

XBB.1.5 is the top circulating lineage in all HHS regions

4/n Image
Recombinant lineage hotspots by US State from #VariantDashboard #15DayTrends



5/n
Closely looking at XBB proportions (includes other XBB.x.y.z like XBB.1.9.1 etc)

6/n Image

• • •

Missing some Tweet in this thread? You can try to force a refresh
　

Keep Current with Raj Rajnarayanan

Raj Rajnarayanan Profile picture

Stay in touch and get notified when new unrolls are available from this author!

Read all threads

This Thread may be Removed Anytime!

PDF

Twitter may remove this content at anytime! Save it as PDF for later use!

Try unrolling a thread yourself!

how to unroll video
  1. Follow @ThreadReaderApp to mention us!

  2. From a Twitter thread mention us with a keyword "unroll"
@threadreaderapp unroll

Practice here first or read more on our help page!

More from @RajlabN

Raj Rajnarayanan Profile picture
Mar 18
#COVID19 #VariantDashboard - #UnitedStates

TOP lineages (#15DAYTRENDS):

79.4% XBB.1.5
1.9% XBB.1.9.1
1.6% XBB.1.5.13
1.3% XBB.1.5.4
1.1% BQ.1.1
1.0% XBB.1.5.1
1.0% XBB.1.16👀
0.8% CH.1.1
0.8% XBB.1.5.2

Tracker: tinyurl.com/mryj4uu7
Uptd: 03/17/2023

1/n Image
Sequence count by US State

#California has submitted a big share of sequences with specimen collection dates on or after 03/02/2023

XBB.1.5 is still occupying the top spot; XBB.1.9.1 moves to #2 spot!

2/n Image
USA Airport surveillance update #15DayTrends

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

*Includes pooled swabs; Many bad QC seqs

3/n
Read 10 tweets
Raj Rajnarayanan Profile picture
Mar 17
#COVID19 #VariantDashboard - #UnitedStates

TOP lineages (#15DAYTRENDS):

77.6% XBB.1.5
1.9% XBB.1.9.1
1.8% XBB.1.5.13
1.4% XBB.1.5.4
1.2% BQ.1.1
1.1% XBB.1.5.2
1.1% CH.1.1
1.0% XBB.1.5.1
0.5% XBB.1.16

Tracker: tinyurl.com/mryj4uu7
Updated: 03/16/2023
1/n
Sequence count by US State

#California, #Illinois, #Washington, #Massachusetts, #Texas, #Nebraska & #NewYork have submitted a big share of sequences with specimen collection dates on or after 03/01/2023

XBB.1.5 is still occupying the top spot; XBB.1.9.1 moves to #2 spot!

2/n
USA Airport surveillance update #15DayTrends

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

>50% XBB.1.16 seqs via airport surveillance (15 out of 26 seqs till date)

*Includes pooled swabs; Many bad QC seqs

3/n
Read 10 tweets
Raj Rajnarayanan Profile picture
Mar 16
Glad to see @WHO cares and will continue its #VariantTracking efforts!

These decisions generate a domino-type effect often ending up impacting the funds allocated for robust global surveillance efforts

#VariantTrackers have their task cut out...
Important resources to keep you updated with what's happening in the variant world

1. Cov-Spectrum Collection 24 for effective tracking- cov-spectrum.org/collections/24 (@siamosolocani @Asinickle1 @wolfeagle1989)
2. Nick names for effective communication- whn.global/common-names-f… (@TRyanGregory )
Read 7 tweets
Raj Rajnarayanan Profile picture
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
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
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
Read 15 tweets
Raj Rajnarayanan Profile picture
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
Granular details #Global #20DayTrends

This analysis includes all designated #SARSCoV2 sequences submitted to GISAID with sample collection dates on or after 01/12/2023
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
Read 8 tweets
Raj Rajnarayanan Profile picture
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

Did Thread Reader help you today?

Support us! We are indie developers!

This site is made by just two indie developers on a laptop doing marketing, support and development! Read more about the story.

Become a Premium Member ($3/month or $30/year) and get exclusive features!

Become Premium

Don't want to be a Premium member but still want to support us?

Make a small donation by buying us coffee ($5) or help with server cost ($10)

Donate via Paypal

Or Donate anonymously using crypto!

Ethereum

0xfe58350B80634f60Fa6Dc149a72b4DFbc17D341E copy

Bitcoin

3ATGMxNzCUFzxpMCHL5sWSt4DVtS8UqXpi copy

Thank you for your support!

Follow Us on Twitter!

Send Email!

:(