First report of #COVID19 #reinfection from #India - two #asymptomatic health workers identified on routine #surveillance
academic.oup.com/cid/advance-ar…

#CSIRfightsCOVID19
#Genome sequencing of the #SARSCoV2 isolates from both the episodes suggest distinctly different virus , confirming reinfection.
Since the individuals were #asymptomatic during both episodes, and identified on regular #surveillance suggest asymptomatic #reinfections could be an under-reported entity. 2/2
Sinxe #healthcare workers have much higher risk of exposure, regular #surveillance of healthcare workers could potentially uncover the real #incidence

@EricTopol @GANGULYIICB @CMCLudhiana
This was possible only with wonderful collaborators from #GIMS and team at @IGIBSocial @SridharSivasub3 @RcBHOYAR @Abhinav_Jain_19 @bani_jolly @dishasharmaaa @mkdivakar @gyanranjan2197 @Paras__Sehgal and Mohd Imran

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More from @vinodscaria

Jan 4
A lot of discussion about B.1.640.2 reported from Southern France 🇫🇷 and a preprint on the variant medrxiv.org/content/10.110…
This 🧵is to summarize what we know. 👇
🔴14 changes including N501Y and E484K, & 9 deletions in Spike
🔵B.1.640 (now renamed B.1.640.1) had been in the @WHO watchlist for quite some time (Nov 2021)
🔵Index case seemingly was from Cameroon (doesn't mean it originated there)
🔴Many of the mutations are shared with VoCs
🟢Though predates omicron, sequences have not grown rapidly
🟢 Mutation specific qPCR assays can screen and differentiate from Delta and Omicron
🔴We don't know whether the increasing cases in South France 🇫🇷 are associated with the new variant
Read 8 tweets
Dec 3, 2021
🔴Transmissibility or Virulence : What should really worry us ?
Since these two have been widely discussed, given #omicron is around. A short explainer 👇.
3 plots below - from ~2x of Rt value and 1/2 of hospitalization rates (less virulent) to basal value (~ Delta wave)
Rt is the effective reproductive no.
One could clearly see why 2x Rt would create a sharper and ⏫rate of hospitalizations.
For a less virulent and highly transmissible variant, assuming 1/2x hospitalization rate, this would still create a significant wave of hospitalizations.
A much detailed mathematical basis to this was discussed in the past by @AdamJKucharski
Read 9 tweets
Nov 30, 2021
Scotland outbreak cases had no apparent travel history to Southern Africa.
theguardian.com/uk-news/2021/n…
Germany reports case of Omicron variant in Leipzig with no travel hsitory to Southern Africa
freepressjournal.in/world/germany-…
Read 4 tweets
Nov 29, 2021
SARS-CoV-2 Variants and RT-PCR
Can RT-PCR Detect Omicron ?
A short thread on the topic. 👇
RT-PCR is a sensitive molecular method widely used for the detection of SARS-CoV-2 in biological samples. This is based on the principle that short pieces of DNA (aka primers) can specifically target DNA/RNA and amplify them using a polymerase protein
Typically COVID-19 RT-PCR kits use 2 or more sets of primers which target the virus nucleic acid at 2 or more genes/sites in the genome. This is to improve the specificity of the detection. Combinations between N, E, RdRP and S genes are typically used.
Read 10 tweets
Nov 25, 2021
What do we know about the B.1.1.529 variant of SARS-CoV-2 with a very large number of mutations
An updated thread on emerging evidence. Image
B.1.1.529 is a newly designated variant of SARS-CoV-2 github.com/cov-lineages/p…
This would not have been possible without the exemplary work of researchers in Africa who have sequenced and deposited the genomes in public domain which forms the basis of this variant designation.
The lineage (variant) is characterized by 32 conserved spike mutations A67V Δ69-70 T95I G142D/Δ143-145, Δ211/L212I ins214EPE G339D S371L S373P S375F K417N N440K G446S S477N T478K E484A Q493K G496S Q498R N501Y Y505H T547K D614G H655Y N679K P681H N764K D796Y N856K Q954H N969K L981F
Read 28 tweets
Nov 24, 2021
Real-world data on effectiveness of BBV152 / Covaxin whole inactivated #COVID19 vaccine against symptomatic infection
👥Healthcare Workers at @aiims_newdelhi
🗓 Coincided with the 2nd wave in #Delhi majorly driven by VoCs
thelancet.com/journals/lanin…

#MedTwitter #vaccines #India
Adjusted effectiveness of BBV152 against symptomatic COVID-19 after 2 doses adm at least
🔸️14d before testing was 50% (95% CI 33–62; p<0·0001).
🔸️28d before testing was 46% (95% CI 22–62) 
🔸️after excluding previous COVID19 cases, 14d before testing was 47% (95% CI 29–61)
In summary
🔸️Vaccine effectiveness requires at least 2 doses and 14 days after 2nd dose

What this means for #PublicHealth
🔸️ Underscores the need for completing vaccine schedule of 2doses
🔸️ Continued non-pharmacological measures in the face of a wave of infections
Read 4 tweets

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