Share this page!

Enter URL or ID to Unroll

You can paste full URL like: https://x.com/threadreaderapp/status/1644127596119195649
or just the ID like: 1644127596119195649

How to get URL link on X (Twitter) App

  1. On the Twitter thread, click on or icon on the bottom
  2. Click again on or Share Via icon
  3. Click on Copy Link to Tweet
  4. Paste it above and click "Unroll Thread"!
  5. More info at Twitter Help
Raj Rajnarayanan Profile picture
@RajlabN
Dec 25, 2022 • 17 tweets • 14 min read • Read on X
Scrolly
#COVID19 #VariantDashboard - #UnitedStates

TOP lineages (15-DAY TRENDS):

16.1% BQ.1.1
13.8% XBB.1.5👀⬆️
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
.@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 (35.5%)👀🚀
BQ.1.1 (14.5%)
XBB.1 (9.1%)
BQ.1 (8.1%)
BQ.1.1.3 (2.4%)
BQ.1.11 (2.0%)
BQ.1.1.4 (1.9%)
BQ.1.14 (1.7%)

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 and BQ.1.22 are the top circulating lineage in CA

13/n ImageImage
A closer look at BQ.1.22....one of the top circulating lineages in #California

As of now, XBB.1.5 and BQ.1.1* are still the top dogs!

14/n Image
Tracking the current #COVID19 wave, variant soup and #Hospitalizations in #Massachusetts

XBB.1.5 is the top circulating lineage in MA

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

XBB.1.5 is the top circulating lineage in CT

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

XBB.1.5 is the top circulating lineage in NJ

17/n ImageImage

• • •

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
Jul 20
Tracking #SARSCoV2 #Lineages - Globally |07/20/24

Top lineages -#30DayTrends

KP.3.1.1 (14.2%)👀
KP.2.3 (7.9%)
KP.3.1 (7.8%)
KP.3.3 (7.7%)
KP.3.2 (3.8%)
KP.3 (3.4%)
KP.3.1.4 (3.4%)
KP.2 (3.4%)
LB.1 (2.7%)
KP.2.2 (2.7%)

Track #G30 :

1/n public.tableau.com/app/profile/ra…
Image
Granular details #Global #30DayTrends KP.3* & KP.2* are the dominant group of lineages in the world.

This analysis includes #SARSCoV2 sequences submitted to @GISAID with sample collection dates on or after 06/20/2024 (12,854 sequences)

2/n Image
@GISAID Thanks to all the countries that are still supporting #SARSCoV2 testing and rapidly submitting sequences to @GISAID

Top submitters: #USA #UK #Canada #Spain #Japan #Israel #France #Singapore #Netherlands #Australia #Ireland #Iceland #China #Sweden #Portugal #Italy

3/n Image
Read 19 tweets
Raj Rajnarayanan Profile picture
Jun 19
#COVID19 #VariantDashboard - #USA | 06/18/24
#SARSCoV2 #Lineages #30DAYTRENDS

KP.2.3 (7.7%)
KP.2 (7.4%)
KP.3.1 (5%)
KP.3.3 (4.8%)
JN.1.16.1 (4.2%)
LB.1.7 (4%)
JN.1.16 (3.4%)
KP.1.1.1 (3.4%)
LB.1.3 (3.3%)
KP.2.2 (3.1%)
--
KP.3.1.1 (1.5%)👀


1/ntinyurl.com/mryj4uu7
You can filter spike mutations S31del, R346T, L455S, F456L, T572I (Top convergent mutations) to display #SLip, #FLiRT, #TiRT, #FLiRTTI, #DeFLiRT combo mutations; (Note: retired #FLip as of now)

Also, by state, lineage, collection date

2/n Image
#AirportSurveillance data - @CDCgov

Traveler Based Genomic Surveillance Program ( )

New: included "Travel history: Mediterranean Norwegian escape" use sampling strategy menu to display (a KP.5 and KP.2 is reported from WY)

3/n wwwnc.cdc.gov/travel/page/tr…
Image
Read 7 tweets
Raj Rajnarayanan Profile picture
Jun 9
Tracking #SARSCoV2 #Lineages - Globally |06/08/24

Top lineages -#30DayTrends (#G30)

KP.2.3 (8.7%)
KP.2 (8.7%)
KP.3.1 (7.7%)
KP.3 (6.2%)
KP.3.2 (5.1%)
LB.1 (5%)
KP.1.1 (4.9%)

Track:

1/n public.tableau.com/app/profile/ra…
Image
Granular details #Global #30DayTrends

KP.3* & KP.2* are the dominant group of lineages in the world.

This analysis includes #SARSCoV2 sequences submitted to @GISAID with sample collection dates on or after 05/09/2024 (8,025 sequences)

2/n Image
@GISAID You can filter spike mutations S31del, R346T, L455S, F456L, T572I (Top convergent mutations) to display #SLip, #FLiRT, #TiRT, #FLiRTTI, #DeFLiRT combo mutations; (Note: retired #FLip as of now)

4/n Image
Read 15 tweets
Raj Rajnarayanan Profile picture
Jun 5
#SARSCoV2 #VaccineAntigen Updates

Question before @US_FDA #VRBPAC committee:

For the 2024-2025 Formula of #COVID19 vaccines in the U.S., does the committee recommend a monovalent JN.1-lineage vaccine composition?

Watch:

1/n youtube.com/live/weaKQiFk_…
Image
Mutations of Interest on JN.1 background

JN.1 + F456L (FL) |JN.1.16 • JN.1.11.1
JN.1 + R346T (RT) |•JN.1.18 •JN.1.13.1 • KQ.1
JN.1 + R346T + F456L (#FLiRT) |•KP.2 • KP.1.1
JN.1 + R346T + F456L + T572I (#FLiRTTI) |• KZ.1.1.1
JN.1 + F456L + Q493E (#FLuQE) |• KP.3

2/n Image
from @Novavax presentation

JN.1 Vaccine Induces Broad Neutralizing Responses to All Subvariants Tested

3/n Image
Read 4 tweets
Raj Rajnarayanan Profile picture
Jun 5
#SARSCoV2 Updates

KP.3 group of lineages (as of 6/4/2024) Image
KP.2 (JN.1.11.1 w/ S:R346T) group of lineages (as of 6/4/2024) Image
JN.1* group swells to 266 (not counting recombinants)
Read 4 tweets
Raj Rajnarayanan Profile picture
May 18
Tracking #SARSCoV2 #Lineages - Globally |05/18/24

Top lineages -#30DayTrends (#G30)

KP.2 (12.7%)
KP.3 (11.6%)👀
JN.1.7 (6.9%)
JN.1 (6.8%)
JN.1.16 (5%)
JN.1.4 (4.9%)
JN.1.16.1 (4.6%)
KP.1.1 (3.6%)
KS.1 (2.8%)
JN.1.32 (2.7%)
LB.1 (2.7%)


1/npublic.tableau.com/app/profile/ra…
Granular details #Global #30DayTrends

KP* is the dominant group of lineages in the world.

This analysis includes #SARSCoV2 sequences submitted to @GISAID with sample collection dates on or after 04/18/2024 (6,469 sequences)

2/n Image
@GISAID Predicted Immune Escape vs ACE2 Binding Scores of circulating SARSCoV2 lineages (Relative to BA.2)



3/n public.tableau.com/app/profile/ra…
Image
Read 7 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!

Send Email!

:(