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
Raj Rajnarayanan
@RajlabN
Assistant Dean of Research and Associate Professor, NYITCOM at Arkansas State University | My Tweets are my own
Dame Chris🌟🇺🇦😷 #RejoinEU #FBPE #GTTO🔶️ Profile picture Sue Strong @strong_sue@mastodon.sdf.org 🇺🇦 Profile picture Christina Cat Profile picture 5 subscribed
Apr 16 • 4 tweets • 2 min read
#COVID19 #VariantDashboard - #USA | 04/16/24

#SARSCoV2 #Lineages #30DAYTRENDS

JN.1 (24.7%)
JN.1.4 (13.3%)
JN.1.7 (9.8%)
JN.1.8.1 (5.6%)
KP.2 (4.6%)
JN.1.18 (3.5%)
KQ.1 (3%)
JN.1.13.1 (2.6%)
JN.1.4.5 (2.6%)
JN.1.32 (2.3%)

Tracker:
1/ntinyurl.com/mryj4uu7 Sequence count by US States

A total of 1509 sequences were submitted with specimen collection dates on or after 03/16/2024 (of which 69 (~4.6%) were collected via airport surveillance)

2/n Image
Apr 14 • 6 tweets • 3 min read
Tracking #SARSCoV2 #Lineages - Globally |04/13/24

Top lineages -#30DayTrends (#G30):

JN.1 (27.7%)
JN.1.4 (15%)
JN.1.7 (9%)
JN.1.18 (4.3%)
KP.2 (3.4%)
JN.1.8.1 (3.3%)
JN.1.32 (3.1%)
JN.1.16 (2.8%)
JN.1.4.3 (2.7%)
JN.1.11.1 (2%)

Track:

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

JN.1* is still the dominant group of lineages in the world.

This analysis includes #SARSCoV2 sequences submitted to @GISAID with sample collection dates on or after 03/14/2024 (6,157 sequences)

2/n Image
Apr 12 • 4 tweets • 2 min read
#SARSCoV2 #VariantProportions - #USA |04/12/24

@CDCgov #Nowcast 2-Week estimates

JN.1* is still the dominant circulating group of lineages

Expected JN.1.11.1* sub-lineages (KP*) and others with #FLiRT mutations to feature in the dashboard



1/n covid.cdc.gov/covid-data-tra…
Image #FLiRT lineages are growing 👀

Nearly 20% of JN.1.13 (listed in CDC dashboard) is KS.1 (JN.1.13.1.1; not separated from the parent lineage yet)

and 55% of JN.1.16 is JN.1.16.1

Both KS.1 and JN.1.16.1 are #FLiRT lineages

2/n
Apr 7 • 6 tweets • 3 min read
Tracking #SARSCoV2 #Lineages - Globally |04/06/24

Top lineages -#30DayTrends (#G30):

JN.1 (31%)
JN.1.4 (16.6%)
JN.1.7 (8%)
JN.1.18 (4%)
JN.1.32 (3.3%)
JN.1.8.1 (3.1%)
KP.2 (2.4%)
JN.1.4.3 (2.3%)
JN.1.1 (2%)
JN.1.39 (1.9%)

Track:

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

JN.1* is still the dominant group of lineages in the world.

This analysis includes #SARSCoV2 sequences submitted to @GISAID with sample collection dates on or after 03/07/2024 (6,619 sequences)

2/n Image
Apr 5 • 5 tweets • 2 min read
#H5N1 Clade 2.3.2.1c - #Vietnam

New sequence from Khanh Hoa has intriguing #avianflu reassortment and PB2-E627K mammalian adaptation signature.

PB2-E627K was absent in previously submitted avian sequences.

Case description: fao.org/vietnam/news/d…
Image more information on H5N1 Clade 2.3.2.1c from @WHO

who.int/emergencies/di…
Apr 3 • 7 tweets • 2 min read
H5N1 Update | Avian Flu Clade 2.3.4.4b

Looked at the newly uploaded Human Sequence (ID: 19027114) from Texas

- PB2 contains 👀E627K 👀

in addition to the mutations found in the dairy cattle and wild bird sequences uploaded earlier (used #Fluserver for mutational analysis)
Image Thanks to the labs that are testing, rapidly sequencing and submitting data to public databases (GISAID and others)!
Mar 29 • 5 tweets • 2 min read
#SARSCoV2 #VariantProportions - #USA |03/29/24

@CDCgov #Nowcast 2-Week estimates

JN.1* is still the dominant circulating group of lineages

Expected JN.1.11.1* sub-lineages (KP*) and others with #FLiRT mutations to feature in the dashboard



1/n covid.cdc.gov/covid-data-tra…
Image In the next few weeks expect to see an increase in lineages containing Spike mutations R436T and/or F456L

Closely watching lineages with #FLiRT mutations (high immune escape)

2/n
Mar 28 • 5 tweets • 2 min read
#COVID19 #VariantDashboard - #USA | 03/27/24

#SARSCoV2 #Lineages #30DAYTRENDS

JN.1 (29.5%)
JN.1.4 (18.8%)
JN.1.7 (7.6%)
JN.1.8.1 (5.1%)
JN.1.18 (3.2%)
JN.1.4.3 (3.1%)
JN.1.13.1 (2.9%)
KP.2 (2.5%)👀

Tracker:

1/ntinyurl.com/mryj4uu7 62 of the 74 KP.2 sequences were identified via #Airport #Surveillance [ @CDCgov Traveler Based Surveillance Program* ]

*Currently at six airports from 5 US States (#California, #NewYork, #Washington, #NewJersey and #Virginia)

2/n Image
Mar 24 • 7 tweets • 3 min read
Tracking #SARSCoV2 #Lineages - Globally |03/23/24

Top lineages -#30DayTrends (#G30):

JN.1 (41.2%)
JN.1.4 (19.5%)
JN.1.7 (6.3%)
JN.1.8.1 (3.3%)
JN.1.1 (3%)
JN.1.18 (3%)
JN.1.4.3 (2%)
JN.1.13.1 (1.6%)
KP.2 (1.2%)
JN.1.16 (1.2%)

Track:

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

JN.1* is still the dominant group of lineages in the world.

This analysis includes #SARSCoV2 sequences submitted to @GISAID with sample collection dates on or after 02/22/2024 (9,400 sequences)

2/n Image
Mar 21 • 4 tweets • 2 min read
#COVID19 #VariantDashboard - #USA

#SARSCoV2 #Lineages #30DAYTRENDS

JN.1 (40%)
JN.1.4 (20.8%)
JN.1.7 (7.1%)
JN.1.8.1 (5%)
JN.1.4.3 (2.7%)
JN.1.13.1 (2.6%)
JN.1.18 (2.6%)
JN.1.1 (2.5%)
--
KP.2 (1.1%)
KQ.1 (1%)

Tracker: | 03/20/24

1/ntinyurl.com/mryj4uu7 Variant Proportions (#30DayTrends):

Next generation JN.1* sub-lineages KQ.1 & KP.2 are circulating above 1% now

Closely watching uptick of KQ.1 in #Georgia

2/n Image
Mar 6 • 7 tweets • 3 min read
#COVID19 #VariantDashboard - #USA

#SARSCoV2 #Lineages #30DAYTRENDS

JN.1 (43.5%)
JN.1.4 (21.8%)
JN.1.7 (5%)
JN.1.8.1 (3.9%)
JN.1.1 (3.4%)
JN.1.4.3 (2.2%)
JN.1.4.2 (2%)
JN.1.18 (1.9%)
XDP (1.6%)
JN.1.13.1 (1.4%)

Tracker: | 03/04/24
1/ntinyurl.com/mryj4uu7 Sequence count by US States

A total of 5229 sequences were submitted with specimen collection dates on or after 02/04/2024 (of which 444 (~8.5%) were collected via airport surveillance)

2/n Image
Feb 24 • 5 tweets • 3 min read
#COVID19 #VariantDashboard - #USA

#SARSCoV2 #Lineages #30DAYTRENDS
JN.1 (45%)
JN.1.4 (22.7%)
JN.1.7 (4.2%)
JN.1.1 (3.7%)
JN.1.8.1 (3.2%)
JN.1.4.3 (2.3%)
JN.1.4.2 (1.8%)
JN.1.9 (1.4%)
--
XDP (1%)👀

Tracker: | 02/23/24
1/n tinyurl.com/mryj4uu7
Image Sequence count by US States

A total of 7029 sequences were submitted with specimen collection dates on or after 01/24/2024 (of which 168 (~2.4%) were collected via airport surveillance)

2/n Image
Feb 22 • 6 tweets • 3 min read
#COVID19 #VariantDashboard - #USA

#SARSCoV2 #Lineages #30DAYTRENDS

JN.1 (44.2%)
JN.1.4 (22.6%)
JN.1.1 (4.2%)
JN.1.7 (3.5%)
JN.1.8.1 (3.1%)
JN.1.4.2 (2.2%)
JN.1.4.3 (1.7%)
JN.1.9 (1.4%)

Tracker: | 02/21/24
1/n tinyurl.com/mryj4uu7
Image Sequence count by US States

A total of 5653 sequences were submitted with specimen collection dates on or after 01/22/2024 (of which 168 (~3%) were collected via airport surveillance)

2/n Image
Feb 21 • 6 tweets • 3 min read
#COVID19 #VariantDashboard - #USA

#SARSCoV2 #Lineages #30DAYTRENDS

JN.1 (44.2%)
JN.1.4 (22.6%)
JN.1.1 (4%)
JN.1.7 (3.5%)
JN.1.8.1 (3.2%)
JN.1.4.2 (2.3%)
JN.1.4.3 (1.6%)

Tracker: | 02/20/24
1/n tinyurl.com/mryj4uu7
Image Sequence count by US States

A total of 5579 sequences were submitted with specimen collection dates on or after 01/21/2024 (of which 174 (~3.1%) were collected via airport surveillance)

2/n Image
Feb 10 • 5 tweets • 2 min read
Tracking #SARSCoV2 #Lineages - Globally |02/10/24

Top lineages -#30DayTrends (#G30):

JN.1 (49.1%)⬆️
JN.1.4 (17.8%)⬆️
JN.1.1 (6.4%)
HV.1 (2.2%)⬇️
BA.2.86.1 (1.7%)
JN.1.7 (1.6%)
JN.1.2 (1.3%)
HK.3 (1.2%)
JN.1.8.1 (1.1%)
JN.1.5 (1.1%)



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

JN.1* is the dominant group of lineages in the world.

This analysis includes #SARSCoV2 sequences submitted to @GISAID with sample collection dates on or after 1/11/2023 (20,288 sequences)

No BA.2.87.1 reported in this period

2/n Image
Feb 9 • 6 tweets • 3 min read
#COVID19 #VariantDashboard - #USA

#SARSCoV2 #Lineages #30DAYTRENDS

JN.1 (46.9%)
JN.1.4 (25.2%)
JN.1.1 (4.7%)
HV.1 (3.1%)
JN.1.8.1 (2.5%)
JN.1.7 (2.3%)
JN.1.2 (1.4%)
JN.1.9 (1.2%)

Tracker: | 02/08/24
1/n tinyurl.com/mryj4uu7
Image Sequence count by US States

A total of 8087 sequences were submitted with specimen collection dates on or after 01/08/2024 (of which 149 (~1.8%) were collected via airport surveillance)

2/n Image
Feb 8 • 6 tweets • 3 min read
#COVID19 #VariantDashboard - #USA

#SARSCoV2 #Lineages #30DAYTRENDS

JN.1 (46.2%)
JN.1.4 (24.7%)
JN.1.1 (4.9%)
HV.1 (3.3%)
JN.1.8.1 (2.6%)
JN.1.7 (2.1%)
JN.1.2 (1.4%)
JD.1.9 (1.1%)

Tracker: | 02/07/24
1/ntinyurl.com/mryj4uu7 Sequence count by US States

A total of 8132 sequences were submitted with specimen collection dates on or after 01/08/2024 (of which 188 (~2.3%) were collected via airport surveillance)

2/n Image
Feb 2 • 4 tweets • 2 min read
#COVID19 #VariantDashboard - #USA

#SARSCoV2 #Lineages #30DAYTRENDS

JN.1 (43.8%)
JN.1.4 (21.7%)
JN.1.1 (5.1%)
HV.1 (5.1%)
JN.1.8.1 (2.1%)
JN.1.7 (1.7%)
JN.1.2 (1.6%)
JN.1.9 (1.1%)
JD.1.1 (1.1%)

Tracker: | 02/02/24
1/n tinyurl.com/mryj4uu7
Image Sequence count by US States

A total of 8993 sequences were submitted with specimen collection dates on or after 01/02/2024 (of which 374 (~4.2%) were collected via airport surveillance)

2/n Image
Feb 1 • 4 tweets • 2 min read
Closely following the new BA.2.X SARS-CoV-2 lineage with with > 100 mutations (>30 mutations in Spike) from South Africa

H/T @Tuliodna #NewLineageAlert #OmicronSaltation

This just got designated as BA.2.87.1 (Alias of B.1.1.529.2.87.1) | BA.2.87 with 15+ Spike mutations

H/T @CorneliusRoemer

more info: github.com/cov-lineages/p…
Feb 1 • 4 tweets • 2 min read
#COVID19 #VariantDashboard - #USA

#SARSCoV2 #Lineages #30DAYTRENDS

JN.1 (42.8%)
JN.1.4 (22.5%)
HV.1 (5.3%)
JN.1.1 (5.2%)
JN.1.8.1 (2.1%)
JN.1.7 (1.7%)
JN.1.2 (1.6%)
JD.1.1 (1.2%)
JN.1.9 (1.1%)

Tracker: | 02/01/24
1/n tinyurl.com/mryj4uu7
Image Sequence count by US States

A total of 9844 sequences were submitted with specimen collection dates on or after 01/01/2024 (of which 404 (~4.1%) were collected via airport surveillance)

2/n Image
Jan 27 • 8 tweets • 4 min read
#COVID19 #VariantDashboard - #USA

#SARSCoV2 #Lineages #30DAYTRENDS

JN.1 (41.5%)👁️
JN.1.4 (19.7%)👁️
HV.1 (6.9%)
JN.1.1 (5.5%)
JN.1.8.1 (1.8%)👁️
JN.1.2 (1.6%)
JN.1.7 (1.4%)
JD.1.1 (1.3%)
HK.3 (1%)
BA.2.86.1 (1%)

Tracker: | 01/26/24
1/n tinyurl.com/mryj4uu7
Image Sequence count by US States

A total of 9880 sequences were submitted with specimen collection dates on or after 12/25/2023 (of which 474 (~4.8%) were collected via airport surveillance)

2/n Image