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Dr Emma Hodcroft Profile picture
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28 Jul, 4 tweets, 2 min read
Today, my best birthday present is being fully vaccinated! 🎂

But so many still aren't - & the pandemic has wrecked havoc on routine vaccinations too.

Donate to @gavi, @UNICEF or others & I'll match up to $500! Send your receipt to vaccine_donations@protonmail.com & plz RT!

1/
As well as desperately requiring stronger action towards more equitable #COVID19 vaccination, the pandemic has meant so many children weren't able to get basic vaccines.

This could add unnecessarily to the already too-large burden of the pandemic.

2/
who.int/news/item/15-0…
The pandemic has hit a lot of people hard in many ways, including financially. Please do not give if it would cause you hardship. ❤️

There are other ways you can help!
Talk to an unvaccinated friend 🗣️, or put pressure on your government to do more to help globally! 📨

3/
If it's easier, you can also donate through Facebook - this'll also count toward the matching! 🙏🏻

Every euro/dollar/pound/franc counts - thank you all! 🧧

Stay safe, get vaccinated, & have a wonderful day! 😊

4/
facebook.com/donate/5570913…

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More from @firefoxx66

Dr Emma Hodcroft Profile picture
19 Jul
I want to repeat what others have said:

**If you do not get vaccinated against SARS-CoV-2, you /will/ get infected one day.**

We won't eliminate SARS-CoV-2.
The choice isn't "vaccine or not" - it's "vaccine or infection". This is critical for weighing up risks/unknowns.

1/5
If the mindset is "vaccine or not", it is easy to think that waiting & watching is safer, because you stay in 'nothing happens' territory.

But this isn't accurate. As we see now: unvaccinated people are where cases are spiking & this is going to remain true for a long time.

2/5
I still hear concern from people about the 'unknown long-term effects' of vaccination.

But what I don't hear people also considering is the unknown long-term effects of COVID-19.

Or a fair comparison of the well-known shorter-term effects & risks of both.

3/5
Read 5 tweets
Dr Emma Hodcroft Profile picture
16 Jul
The underlying problem isn't that the UK COVID-19 app is 'too sensitive.'

With a quarter-million cases & few restrictions, even if only correct contacts were pinged, that would be a huge number of alerts & isolations!

And yes - that's going to cause a lot of disruption 🤷🏻‍♀️

1/5
We're papering over the consequences of huge case numbers with debates around sensitivity.

Yes, we can turn sensitivity down - but # of alerts will continue to grow with cases - still potentially annoying people (who uninstall) & certainly continuing to cause disruption.

2/5
This isn't to say we shouldn't try to make pings more accurate, rather, that this isn't an actual solution to high number of pings right now.

Even if 30% pings were bad & we could get perfection now, UK cases rose 33% this week - so we are still at crazy high notifications.

3/5
Read 5 tweets
Dr Emma Hodcroft Profile picture
15 Jul
I've run preliminary @nextstrain focal builds on 20B/S:796H (B.1.1.318) (pictured) & 20A/S:210T (B.1.619).

These aren't part of CoVariants (yet?) but they've caught a couple eyes and I thought it was worth taking a closer look.

1/8 Image
20B/S:796H (B.1.1.318) is behind most of the recent increase in 'other' variants circulating in Greece (shown in grey on the CoVariants plot, below - disregard last point, low sequence #'s).

It's very prominent in Greece, but also found worldwide.

2/8
nextstrain.org/groups/neherla… ImageImage
Taking a closer look at Europe only, we can see there's a large cluster in Greece, but also distinct clusters in Switzerland & Ireland, & many sequences from other countries scattered between.

3/8
nextstrain.org/groups/neherla… Image
Read 8 tweets
Dr Emma Hodcroft Profile picture
7 Jul
🎉CoVariants.org update! 🎉

4 new variants & focal builds added:
- 21G (Lambda) (C.37)
- 21H (B.1.621)
- 20B/S:732A (B.1.1.519)
- 20A/S:126A (B.1.621)

Also - we have awesome new flags on the Per Country page! 🏁🚩

Let's take a closer look...👀

1/10
21G (Lambda) was recently classified a VoI by @WHO & included in @nextstrain builds. It seems to originate in South America - we can see its prevalence in countries like Chile, Argentina, Ecuador, & Peru (purple-pink):

2/10
Looking at the focal build, we can see that 21G (Lambda) has also been found in North America, Europe, the Middle East, and Australia.

Lambda has a unique 7 AA deletion in Spike, & a mutation at S:L452Q.

3/10

nextstrain.org/groups/neherla…
Read 10 tweets
Dr Emma Hodcroft Profile picture
24 Jun
Another brief update: many of the latest focal builds are still baking🥖, but I've gone ahead and pushed up some finished Delta-related runs.

In particular, I wanted to look a little at what's being called 'Delta Plus' = Delta + S:417N mutation

1/9
nextstrain.org/groups/neherla…
S:417N has actually popped up multiple times in the Delta variant - it's of interest because it's thought to be related to immune escape & is also found in Beta.

But looking below, there are 2 main clusters - @PangoNetwork lineages AY.2 & AY.1

2/9
nextstrain.org/groups/neherla…
I don't have 1 build that shows these clusters perfectly yet (working on it!), so we'll use 2 - the focal builds for Delta & S:K417.

Delta: nextstrain.org/groups/neherla…
S:K417: nextstrain.org/groups/neherla…

3/9
Read 9 tweets
Dr Emma Hodcroft Profile picture
24 Jun
🛠️CoVariants.org Update!🛠️

The latest push to CoVariants tweaks how sequences are classified as Variants in some cases, & you'll notice changes in some graphs as a result.

Overall, this change means better classification for lower-quality sequences👍🏻👏🏻

Read on...

1/6
CoVariants looks at nucleotide changes to classify sequences - a sequence must have all of a list of changes to be classified.🧬🔢✅

But sometimes during a sequencing, part of the DNA might not be 'read' ("low coverage"), so we have no information for some locations. ❓

2/6
If some of the positions CoVariants is looking for have low coverage & no information, they won't get classified as Variants. 🧬1⃣2⃣4⃣✖️

This can particularly impact places sequencing lower-quality sequences, as CoV will 'undercount' how many are variants! 📉

3/6
Read 6 tweets

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