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Raj Rajnarayanan Profile picture
@RajlabN
Jun 8, 2022 • 12 tweets • 14 min read • Read on X
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#COVID19 #VariantDashboard - #UnitedStates

TOP lineages (15-DAY TRENDS):

57.01% BA.2.12.1**,
22.06% BA.2,
4.07% BA.5^^,
3.19% BA.2.12,
3.06% BA.4^^,
2.73% BA.2.9 and
2.65% BA.2.3

**S:L452Q; ^^S:L452R/F486V

Tracker: tinyurl.com/mryj4uu7
#OmicronUpdates 06/07/22
#OmicronVariantUpdates #UnitedStates 06/07/22

Top circulating lineages: BA.2.12.1, BA.2*, BA.5, BA.2.12, BA.4, BA.2.9, BA.2.3

Proportion of BA.5/BA.4 is increasing

* includes recently designated BA.2.x.y
BA.2.12.1 hotspots - #UnitedStates (#15DayTrends)

Top 5 Hotspots: #NewYork, #Florida, #Texas, #California, #Arizona
BA.5/BA.4 hotspots - #UnitedStates #15DayTrends

#Texas tops the charts today! 👀
#COVID19 #Hospitalizations in the #UnitedStates

Hospital Tracker (by States, by age group): public.tableau.com/app/profile/ra…
#Hospital #Capacity - (by State/Division)

All hospitalizations not just COVID-19

public.tableau.com/app/profile/ra…
Tracking #circulating #variants in New York (#Bellwether state) #15DayTrends

BA.2.12.1 is the dominant variant in #NY

NY is also BA.4/BA.5 hotspot

#MaskUP #NewYork
#COVID19 #Hospitalizations in #NewYork

Q-wave (BA.2.12.1) may have peaked in NY.. expect a Q/R transition period of relative calm.. then setting the stage for a R-wave (triggered by BA.5/BA.4)
Q**/R^^-Wave is picking up steam in #Texas

53.63% BA.2.12.1**
8.41% BA.5^^
4.63% BA.4^^
Q-wave in #Florida!
BA.2.12.1 driven Q-wave in #California!
Status of circulating #SARSCoV2 lineages in the #DeltaRegion (#Alabama, #Arkansas, #Illinois, #Kentucky, #Louisiana, #Mississippi, #Missouri and #Tennessee)

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More from @RajlabN

Raj Rajnarayanan Profile picture
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
official report: ldh.la.gov/news/H5N1-death
Note: This is H5N1 Avian Influenza A #WildBird -D1.1 genotype and not #DairyCattle B3.13 genotype related
Read 4 tweets
Raj Rajnarayanan Profile picture
Jan 1
#H5N1 #AvianInfluenza updates

New @NEJM case report describing severe human illness caused by highly pathogenic avian influenza A -H5N1 in #BritishColumbia (#Canada) teenager with evidence of potential viral adaptation to humans.



1/n nejm.org/doi/full/10.10…Image
A 13-year-old girl with mild asthma and obesity (BMI >35) presented with conjunctivitis, fever, respiratory distress, and multi-organ complications was hospitalized on 11/7/24, and required intensive care, including ECMO and continuous renal therapy

2/n
RT-PCR confirmed A/H5N1 infection, and the virus was linked to wild birds in British Columbia.

Genetic analysis revealed mutations in the HA protein (E186D, Q222H), associated with increased binding to human airway receptors, facilitating viral entry and replication.

3/n
Read 6 tweets
Raj Rajnarayanan Profile picture
Dec 22, 2024
#H5N1 #AvianInfluenza updates

Quick analysis of the 7 sequences from NIAID experimental study of #Macaques infected w/ H5N1 2.3.4.4b (B3.13 type)

PB2 mutations: T58A, V109I, V139I, E362G, K389R, D441N, V478I, V495I, M631L, V649I, M676A, E677K

Ref: A/Duck/Guangdong/E1/2012

1/n
HA mutations: L120M, L131Q, T211I, V226A, I526V

Ref: A/Astrakhan/3212_cell/2020

2/n
NA mutations: V67I, D259E, L269M, V321I, S339P

Ref: A/AmericanWigeon/SouthCarolina/22-000345-001/2021

3/n
Read 4 tweets
Raj Rajnarayanan Profile picture
Oct 20, 2024
Tracking #SARSCoV2 #Lineages - Globally |10/19/24

Top lineages -#30DayTrends #G30

KP.3.1.1 (41.9%)
XEC (10.5%)👀
KP.2.3 (3.1%)
MC.13 (3.1%)
MC.16 (2.6%)
MC.1 (2.5%)
KP.3.3 (2.3%)
LB.1.3.1 (1.9%)
MC.10 (1.7%)
MC.11 (1.4%)
XEC.2 (1.3%)👀



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

KP.3.1.1* is still the top circulating group of lineages in the world.

This analysis includes #SARSCoV2 sequences submitted to @GISAID with sample collection dates on or after 09/19/2024 (11,851sequences)

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

Top submitters #Canada #USA #France #UK #Netherlands #Sweden #Spain #Japan #Italy
#Denmark #Australia #Ireland #Singapore
#China #NewZealand #Slovenia #Germany

3/n Image
Read 4 tweets
Raj Rajnarayanan Profile picture
Sep 27, 2024
#SARSCoV2 #VariantProportions - #USA |09/27/24

@CDCgov #Nowcast 2-Week estimates

KP.3.1.1 (JN.1.11.1.3.1.1) is still the top circulating lineage in the USA

🚨XEC makes an entry @ 5.7%



1/n covid.cdc.gov/covid-data-tra…
Image
Reliable nowcast estimates are available only for HHS regions 2, 3, 4, 5, 7 and 9

Other regions did not sequence enough

2/n Image
KP.3.1.1* group of lineages

In the @CDCgov nowcast chart....
KP.3.1.1* is not further separated in to MC.1-MC.16 sub-lineages

3/n Image
Read 6 tweets
Raj Rajnarayanan Profile picture
Sep 8, 2024
Tracking #SARSCoV2 #Lineages - Globally |09/07/24

Top lineages -#30DayTrends

KP.3.1.1 (37.1%)
KP.2.3 (9%)
KP.3.3 (5.7%)
KP.3.1 (2.9%)
XDV.1 (2.9%)
KP.1.1.3 (2.7%)
LB.1 (2.3%)
LB.1.3 (2.1%)
KP.2.2 (2%)
---
XEC (1.4%)👀

Track #G30 :

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

KP.3.1.1* is still the top circulating group of lineages in the world.

This analysis includes #SARSCoV2 sequences submitted to @GISAID with sample collection dates on or after 08/08/2024 (12,884 sequences)

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

Top submitters #USA #Canada #UK #Sweden #Japan
#China #Spain #Australia #Germany #Denmark #SouthKorea #France #Singapore #NewZealand #Ireland #Italy #Netherlands Image
Read 16 tweets

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