Raj Rajnarayanan Profile picture
Mar 24, 2023 11 tweets 11 min read Read on X
#COVID19 #VariantDashboard - #UnitedStates

TOP lineages (#15DAYTRENDS):

72.7% XBB.1.5
3.0% XBB.1.9.1
2.3% XBB.1.5.15
1.4% BQ.1.1
1.2% XBB.1.16
1.2% XBB.1.5.1
1.2% XBB.1.5.13
1.2% XBB.1.5.17

Tracker: tinyurl.com/mryj4uu7
Updated: 03/23/2023

1/n Image
Sequence count by US State

#California has submitted a big share of sequences with specimen collection dates on or after 03/08/2023

XBB.1.5 is still at the top spot;
followed by XBB.1.9.1 & XBB.1.5.15

XBB.1.16.1 is 1.2% and its child XBB.1.16.1 is circulating around 0.5%
2/n Image
Granular details -#VariantDashboard #USA #15DayTrends

XBB.1.5* (VOI - @WHO) is still ahead of the other lineages!

3/n Image
.@CDCgov updated variant proportions estimates on 03/17/2023 (updated every Friday)

XBB.1.5 is leading at the top!

Prudent to start separately tracking XBB.1.5.13 (parent of EK.1* and EK.2*), XBB.1.9.1 (parent of EG.1*) and XBB.1.16



4/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. Get updated if you haven't already!

public.tableau.com/app/profile/ra…

5/n
USA Airport surveillance update #15DayTrends

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

*Includes pooled swabs; Many bad QC seqs

6/n Image
#Hospital #Capacity - (by State/Division)

All hospitalizations not just COVID-19

public.tableau.com/app/profile/ra…

7/n
#COVID19 #Hospitalizations in the #UnitedStates

>60 yr old & immunocompromised
Have a good look at @CDCgov info on #Boosters!

#Ventilate Indoor spaces

Sick? --> Wear a good quality #Mask!

Hospital Tracker (by States, by age group): public.tableau.com/app/profile/ra…

8/n
Circulating recombinant lineages - USA #15DayTrends

XBB.1.5* is still the top recombinant in circulation!

9/n ImageImage
Status of the latest #COVID19 Wave in #California

Top circulating lineages in CA (#15DayTrends)

XBB.1.5 (66.4%)
XBB.1.9.1 (6.4%)
XBB.1.5.15 (4.7%)
XBB.1.16 (3.4%)
XBB.1.5.1 (1.7%)
XBB.1.5.11 (1.7%)
XBB.1.5.13 (1.7%)
XBB.1.5.20 (1.7%)

10/n ImageImage
Status of the latest #COVID19 Wave in #NewYork

Top circulating lineages in NY (#15DayTrends)

XBB.1.5 (74.9%)
XBB.1.9.1 (2.9%)
BQ.1.1 (2.3%)
XBB.1.5.4 (2.3%)
XBB.1.16 (1.8%)
XBB.1.5.15 (1.8%)
11/n ImageImage

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More from @RajlabN

Jun 22
Tracking #SARSCoV2 #Lineages - Globally |06/21/25

Top lineages -#30DayTrends #G30

NB.1.8.1 (18.8%)
LP.8.1.1 (14.9%)
XFG (13.4%)
XFG.3 (6.2%)
PQ.2 (3.9%)
PY.1 (3.3%)
LF.7.1.3 (2.8%)
XFG.2 (2.3%)
PQ.1 (2.1%)
LP.8.1.6 (1.9%)

Tracker:

1/n public.tableau.com/app/profile/ra…Image
This analysis includes #SARSCoV2 sequences submitted to @GISAID with sample collection dates on or after 05/22/2025 (3,720 sequences)

Note: Tracker includes ~81K seqs w/ collection dates on or after 01/01/2025 (seqs with significant date errors are not included)

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

Top submitters #USA #Spain #Australia #UK #India #Canada #Singapore #NewZealand #Kazakhstan #France #China #PuertoRico #Malaysia #Luxembourg #Ireland #HongKong
3/n Image
Read 4 tweets
Jun 16
#COVID19 #VariantDashboard - #USA| 06/15/25

#SARSCoV2 #Lineages #30DAYTRENDS

LP.8.1.1 (22.1%)
NB.1.8.1 (13.6%)👀
XFG.2 (12.9%)👀
XFG (12%)👀
LP.8.1 (3.4%)
LF.7.9.1 (2.5%)
XFJ (2.4%)
LF.7.7.2 (2.3%)
NY.3 (2.3%)
NW.1 (1.7%)

Tracker:

1/n tinyurl.com/mryj4uu7Image
Top #SARSCoV2 #Lineages #30DayTrends after removing #Airport #Surveillance Sequences

LP.8.1.1 (25.9%)
XFG.2 (18%)
NB.1.8.1 (6.9%)
XFG (6.1%)
LP.8.1 (4.7%)

2/n Image
Status of #COVID19 in #NewYork (#Bellwether State)

XFG.2 is the top circulating #SARSCoV2 lineage in NY
others in top 5: LP.8.1.1, XFG, LF.7.7.2, NB.1.8.1

#COVID19 hospitalizations - low | #WasteWater #SARSCoV2 -low | @HealthNYGov

3/n Image
Image
Image
Read 4 tweets
Jun 7
Tracking #SARSCoV2 #Lineages - Globally |06/07/25

Top lineages -#30DayTrends #G30

NB.1.8.1 (21.6%) 👀
LP.8.1.1 (14.5%)
XFG (10.4%)👀
XEC.25.1 (3.1%)
XFG.2 (2.9%)👁️
PC.2 (2.8%)
LF.7.9.1 (2.5%)
PQ.2 (2.4%)👁️
XEC (2%)
PQ.1 (1.9%)

Tracker:

1/n public.tableau.com/app/profile/ra…Image
This analysis includes #SARSCoV2 sequences submitted to @GISAID with sample collection dates on or after 05/08/2025 (3,370 sequences)

Note: Tracker includes ~70K seqs w/ collection dates on or after 01/01/2025 (seqs with significant date errors are not included)

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

Top submitters #USA #Singapore #Spain #UK #Australia #Canada #Thailand #NewZealand #India #France #Ireland #Taiwan #HongKong #Pakistan #Bahrain #Cambodia #Japan

3/n Image
Read 6 tweets
May 25
Tracking #SARSCoV2 #Lineages - Globally |05/24/25

Top lineages -#30DayTrends #G30

LP.8.1.1 (17.1%)
NB.1.8.1 (12.6%)👀
PC.2 (6.2%)
XFG (3.9%)👀
XEC.25.1 (3%)
LP.8.1 (2.8%)
XEC (2.6%)
LP.8.1.6 (2.3%)
XFJ (2.3%)
XEC.4 (2.1%)

Tracker:

1/n public.tableau.com/app/profile/ra…Image
This analysis includes #SARSCoV2 sequences submitted to @GISAID with sample collection dates on or after 04/24/2025 (2,242 sequences)

Note: Tracker includes ~64K seqs w/ collection dates on or after 01/01/2025

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

Top submitters #USA #Singapore #Canada #Spain #UK #Australia #NewZealand #Ireland #Japan #Israel #Denmark #Netherlands #SouthKorea #HongKong #Taiwan #China

3/n Image
Read 5 tweets
Apr 13
Tracking #SARSCoV2 #Lineages - Globally |04/12/25

Top lineages -#30DayTrends #G30

LP.8.1.1 (25%)
XEC (14.3%)
LP.8.1 (11.3%)
XEC.4 (6.1%)
LF.7 (4.5%)
MC.10.1 (3.9%)
LF.7.2.1 (3.5%)
XEC.2 (2.5%)
NB.1 (2.3%)
--
XFJ (~0.3%)

Global Tracker:

1/n public.tableau.com/app/profile/ra…Image
This analysis includes #SARSCoV2 sequences submitted to @GISAID with sample collection dates on or after 03/13/2025 (3,561 sequences)

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

Top submitters #USA #Canada #Australia #Singapore #UK #Spain #France #Japan #NewZealand #Denmark #Croatia #SouthKorea #HongKong #Mexico #Norway #Brazil #Taiwan

3/n Image
Read 5 tweets
Jan 6
The Louisiana Department of Health reports the patient who had been hospitalized with the first human case of highly pathogenic avian influenza (HPAI), or H5N1, in Louisiana and the U.S. has died.

katc.com/news/covering-…Image
Note: This is H5N1 Avian Influenza A #WildBird -D1.1 genotype and not #DairyCattle B3.13 genotype related
Read 4 tweets

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