Raj Rajnarayanan Profile picture
Jan 5 21 tweets 18 min read
#COVID19 #VariantDashboard - #UnitedStates

TOP lineages (#15DAYTRENDS):

18.9% XBB.1.5
14.5% BQ.1.1
9.6% BQ.1
6.6% BQ.1.22
3.2% XBB.1
2.4% BQ.1.1.4
2.3% BQ.1.3
2.1% BQ.1.12
2.0% BQ.1.1.3

Tracker: tinyurl.com/mryj4uu7
#OmicronUpdates 01/04/2023

1/n
Sequence count by US State

New York, California, North Carolina, Washington, Virginia and Florida have submitted a large share of sequences with specimen collection dates in the last 15 days.

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

3/n
.@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 are good candidates to be included in CDC's Nowcast estimates next week!



4/n
#Global #VariantSoup 01/04/2023

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

BQ.1.1 (24.36%)
BQ.1 (8.59%)
BQ.1.22 (4.10%)
XBB.1 (3.95%)
XBB.1.5 (3.04%)👀
CH.1.1 (2.95%)👀
BN.1.3 (2.24%)
BQ.1.2 (2.14%)
BQ.1.1.4 (1.99%)
BQ.1.1.20 (1.79%)

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 dominant #SARSCoV2 lineage in NY

Top Lineages (#15DAYTrends):

XBB.1.5 (53.4%)👀🚀
BQ.1.1 (10.1%)
XBB.1 (6.2%)
BQ.1 (4.1%)
BQ.1.1.4 (2.6%)
BQ.1.3 (2.3%)
BQ.1.1.3 (2.1%)
..
CH.1.1 (1%)

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

12/n
Recombinant lineage XBB.1.5* hotspots - #USA #15DayTrends

13/n
Why the new COVID variant XBB.1.5 is taking over the U.S. so quickly

14/n

salon.com/2023/01/04/why…
Tracking the current #COVID19 wave, variant soup and #Hospitalizations 👀 in #Massachusetts

3 sequences with sample collection dates in the last 15 days (1 each of CK.1, BQ.1.13 & XBB.1.5).

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

XBB.1.5 is the top circulating lineage in CT

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

XBB.1.5 is the top circulating lineage in NJ

17/n
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]

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

BQ.1.22, XBB.1.5 and BQ.1.1 are the top circulating lineages in FL

[low sequence count]

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

BQ.1.1, BQ.1, BQ.1.22 and XBB.1.5 are the top circulating lineages in CA

19/n

• • •

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

Jan 6
#COVID19 #VariantDashboard - #UnitedStates

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

TOP lineages (#15DAYTRENDS):

19.4% BQ.1.1
17.0% XBB.1.5
10.8% BQ.1
3.3% XBB.1
2.8% BQ.1.1.4
2.4% BQ.1.1.3

Tracker: tinyurl.com/mryj4uu7
#OmicronUpdates 01/05/2023

1/n Image
Note: Thanks to Emily Smith (tweet below), misassigned BQ.1.22s were reassigned now to BQ.1.1 or BQ.1.x.y (will check them again and update if there are any additional changes)



2/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 Image
Read 19 tweets
Jan 5
Tracking XBB.1.5* lineage over time | 01/05/2023

Total Sequence Count
- Global: 4,064
- USA: 3,597

Earliest sample collection date: 10/22/22 (NY, USA)*
Now circulating in 33 countries

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

* [excluding samples with date errors] Image
Tracking XBB.1.5* lineage over time in North America | 01/05/2023

Northeast USA is a major hotspot (mainly NY & NE USA)

Emerging hotspot outside USA: Ontario, Canada Image
Tracking XBB.1.5* lineage over time in Europe | 01/05/2023

Emerging hotspots #UnitedKingdom, #Denmark, #Germany, #Austria Image
Read 4 tweets
Jan 4
Tracking XBB.1.5* lineage over time | 01/04/2023

Total Sequence Count
- Global: 3,582
- USA: 3,161

Earliest sample collection date: 10/22/22 (NY, USA)*

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

* [excluding samples with date errors] Image
Tracking XBB.1.5* lineage over time in North America | 01/04/2023

Northeast USA is a major hotspot (mainly NY) Image
Tracking XBB.1.5* lineage over time in Europe | 01/04/2023

Emerging hotspots #UnitedKingdom, #Denmark, #Germany, #Austria Image
Read 4 tweets
Jan 4
#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

1/n Image
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.

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

3/n Image
Read 19 tweets
Jan 3
#VariantDashboard #India - #30DayTrends

>> Low Sequence Count (n=79) <<

Top circulating lineages:

XBB.1 (14.5%)
BQ.1.1 (9.6%)
XBB.1.5 (9.6%)
XBB (8.4%)
XBB.2 (7.2%)
BQ.1 (6.0%)
BY.1 (6.0%)
BA.5.2 (3.6%)

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

Updated: 01/02/2023
Granular details - #VariantProportions #India 1/2/23

XBB* is still the dominant circulating group of lineages in India

XBB.1.5* has entered the conversation in #Maharashtra, #Gujarat and #Telangana
Variant landscape in Indian States with reported XBB.1.5* sequences #30DayTrends (#Maharashtra, #Gujarat and #Telangana)
Read 4 tweets
Jan 3
#COVID19 #VariantDashboard - #UnitedStates

Holiday season - Low seq count this 15day period!

TOP lineages (#15DAYTRENDS):

35.7% XBB.1.5
13.4% BQ.1.1
8.5% BQ.1
4.1% XBB.1
2.8% BQ.1.1.4
2.6% BQ.1.1.3

Tracker: tinyurl.com/mryj4uu7
#OmicronUpdates 01/02/2023

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

3/n
Read 18 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!

:(