I am incredibly grateful to have received the 1st dose of the #COVID19 vaccine๐Ÿ’‰today!

A year ago, I never imagined we'd have multiple vaccines available & being distributed now.
At the same time, I'm saddened the privilege I've been granted is still unavailable to so many.

1/4
This is often particularly the case in countries where continuing high case numbers & outbreaks mean lives are still being lost & people being hospitalized. We must continue to ask countries to do more to realise equitable & fair vaccination access.

2/4

nature.com/articles/s4156โ€ฆ
This is esp true for Western countries which are starting to reach high vaccine levels.

I call on wealthy countries to propose a plan for how they are going to contribute to better & more equal vaccine distribution.๐Ÿ“ข๐Ÿ’‰

We aren't safe until all of us are safe. ๐Ÿคฒ๐Ÿป๐Ÿง‘๐Ÿฟโ€๐Ÿคโ€๐Ÿง‘๐Ÿป๐Ÿง‘๐Ÿผโ€๐Ÿคโ€๐Ÿง‘๐Ÿป๐Ÿง‘๐Ÿพโ€๐Ÿคโ€๐Ÿง‘๐Ÿป

3/4
#SARSCoV2 is a global virus & a global pandemic. We will only truly be in a position to defeat it when we create a global solution. ๐ŸŒŽ๐ŸŒ๐ŸŒ๐Ÿ’‰

We can do better -- and we must - or curse ourselves be haunted by its spectre for a long time to come.

4/4

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More from @firefoxx66

14 May
Transparency & open communication is *so key* in this pandemic.

At @nextstrain we don't claim to be perfect - but you know who we are, how we work, & we try incredibly hard to have open conversations with the community: building trust & better research.

#openscience #opensource
It can be easy to say things like "we are too busy to tweet" or "we don't have time to talk to everyone." I ๐Ÿ’ฏ get it! Not every one of our emails is answered, not every discussion post responded to. But if you want to truly be part of a community: you have to open up to it. ๐Ÿ‘๐Ÿป
It's painful sometimes: it means being open to change, being transparent about how everything works & how decisions are made -- it means openly crediting & celebrating others' work and contributions. ๐ŸŽ‰ But all of that is vital in building a stronger scientific community. โ›“๏ธ
Read 4 tweets
2 May
๐Ÿ—“๏ธCoVariants.org is updated๐Ÿ—“๏ธ, with some cool new additions:
- B.1.617.1/2 are added as 20A/S:154K & 20A/S:478K ๐ŸŽ‰
- Beautiful new name table ๐Ÿ“‘๐Ÿพ
- Mutation list displayed in full as a "side-sausage"๐ŸŒญ

Let's take a tour... ๐Ÿ˜

1/7
I know this took a little time (thank you for your patience! ๐Ÿ™๐Ÿป), but B.1.617 is now in CoVariants as the two sublineages 617.1 & 617.2, called respectively:
- 20A/S:154K (has 484Q)
- 20A/S:478K (no 484Q, has 478K)

2/7
We can see the two lineages best in the India graph of the 'Per Country' page - with S:154K in brighter green, & S:478K in darker green. (Note sequencing may not be representative)

They also show up in low numbers in some other countries.

3/7

CoVariants.org/per-country
Read 8 tweets
28 Apr
From the 'USA state' view (new) at CoVariants.org, I think the dynamics of 20C/S:484K (B.1.526) are intriguing.

Most variants that were circulating at end-2020 have declined after 501Y.V1 (B.1.1.7) (red) expanded - very noticeable with 20C/S:452R (purple) in CA:

1/7
But in states with 20C/S:484K (pink), this has seemed to grow alongside 501Y.V1 (B.1.1.7) (red) - sometimes growing, other times holding steady, or at least not declining significantly (may yet happen).

2/7
Some preprints have estimated the transmission of 20C/S:484K to be similar to 501Y.V1 (B.1.1.7).
20C/S:484K carries the 'Eek' 484K mutation in spike, which may be why neutralization (immune recognition) is lower.

medrxiv.org/content/10.110โ€ฆ
biorxiv.org/content/10.110โ€ฆ

3/7
Read 7 tweets
23 Apr
IT ๐Ÿ’ป pulled out all the stops & the oven (server) is back online, so CoVariants is back in business!! ๐Ÿ› ๏ธ๐ŸŽ‰

CoVariants.org is now updated - latest focal builds are in the oven ๐Ÿฅ–๐Ÿฅ -- & a very cool new breakdown feature has been added! (Read on!)

1/5
Overall variant frequencies per country sometimes don't reflect the whole picture. As a first step to hoping to support more regional views, you can now select a "USA" view on CoVariants' "Per Country" page & view by state!:

2/5

master.covariants.org/per-country
As always, be cautious when interpreting:
- Last data points, when data may still be coming in
- Data points/states with low numbers of samples - may not be representative

3/5
Read 5 tweets
1 Apr
โ€œI am precariously employed; I donโ€™t have a long-term job. I feel a lot of pressure that this is my opportunity and I cannot waste that" says Hodcroft.

Fantastic article by @meredithwadman on how scientists are coping (or not) in this pandemic marathon.

sciencemag.org/careers/2021/0โ€ฆ
I know PIs whose valuable pandemic staff are quitting because *they just can't take it anymore.* I know academics who are counselling post-docs while juggling next-day demands from governments - & of course balancing a family & sometimes homeschooling kids.
It's not sustainable.
You may have noticed I've been absent from Twitter a lot the past few weeks. It's the same phenomenon. I'm lucky: I have no staff or dependents. I'm gainfully employed. But I've spent more than a year feeling guilty *every waking moment* that _I'm not doing enough_.
Read 5 tweets
12 Mar
๐Ÿ—“๏ธCoVariants.org is now updated to data from 11 Mar!๐Ÿ—“๏ธ

Plus, 2 new variants, and new additions to the Shared Mutations page!

โš™๏ธThe builds are already updated and live!๐Ÿ”

1/4
First, the S:Q677 USA variants S:677H (Robin1) and S:677P (Pelican) are added to the lists of variants & Per Country plots.

These variants arose at the end of 2020 & are found across the US, but prominently in the north-central & south-central USA (respectively).

2/4
We know the Shared Mutations table has been helpful for many people to compare Spike mutations shared between Variants - & now it's got even more variants! ๐ŸŽ‰

Sort by commonness or position & see what keeps popping up.
We aim to add even more soon!

3/4

covariants.org/shared-mutatioโ€ฆ
Read 4 tweets

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