FRIDAY GOOD NEWS THREAD:
how about some positivity?

Here's a brief overview of state of Covid in UK right now.

TLDR: pretty good, couple of things to keep an eye on. 1/13
Case rates are below 50/100,000 people/week in all nations (orange), dropping from prev week (grey) and approaching levels last seen Sept 1 last year (green). 2/13
England is the flattest in terms of case rates and this is reflected regionally (orange and grey dots close together). Yorks & Humber still highest region, confirmed by the ONS infection survey too. 3/13
One thing to note is that although all positive LFD tests are now encouraged to get confirmatory PCR, about a third of cases are now positive LFD without confirmation. 4/13
Cases by age are also flat or falling which is good news. This chart is from the ONS infection survey data so is not affected by whether someone has symptoms or changes in LFD test numbers.

All good but note only covers a few days of summer term.

Case data also flat 5/13
So great news that all going in right direction - so much of a better picture compared to where we were a few months ago and also where much of the rest of the world is now.

Couple of warning things to note... (wouldn't be me without some warnings!) 6/13
Firstly, the impact of deprivation has been stark for the last 8 months - Imperial REACT study shows that if anything the disproportionate impact is larger when prevalence is lower. 7/13
Secondly, while overall vaccination is great with 62% of adults having had 1 dose and 26% 2 doses, there are (obviously) differences by age. 8/13
and these differences have also translated (naturally) into presence of antibodies (which arise either from vaccination or from previous infection).

ONS released its latest population antibody survey today. 9/13
So roughly half of people between 16 and 34 don't have any Covid antibodies, maybe 8 million people... (plus 11 million children who've not been vaccinated, although some will have antibodies through prev infection). 10/13
Having so many people with some immunity will do a great deal to slow down any spread as we open up, but might not be enough to keep R<1 (which is what SAGE is worried about after June).

Adding better contact tracing, ventilation etc could keep R<1 + continuing to vax. 11/13
Finally there are variants. These remain the biggest medium term threat to our vax programme and we need to stay on top of them here.

I did a thread on this earlier


PHE last week showed likely increase in variants, particularly in London . 12/13
That said, cases in London very low and this increase in new variant compatible cases does not seem to be increase overall case numbers so far.

So overall - pretty good news! 13/13

PS thanks to Bob Hawkins for many charts. @Kit_Yates_Maths dives into the data in more detail

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More from @chrischirp

2 May
THREAD:
Telegraph is reporting today that updated SAGE models show summer surge will be much smaller than first feared - or perhaps even avoided - because vaccines better than assumed.

And so reporting that reopening might be faster.



Some thoughts...
It is certainly true that since the last models in March
assets.publishing.service.gov.uk/government/upl…

more evidence on vaccines has emerged (against our dominant variant B117):

They are better at preventing illness & better at preventing transmission. Uptake is high & rollout good.
This is all good news will certainly reduce numbers of infections & deaths this summer.

BUT, there are risks to opening more quickly
Read 10 tweets
29 Apr
THREAD update on variants:

Today PHE released more variant data (& split the B1617 ("Indian") variant into 3 subtypes).

Big increase with 400 overall cases in UK - closing in on B1351 (S.African variant).

Guardian article:
theguardian.com/world/2021/apr…

PHE
gov.uk/government/pub…
The COVID-19 Genomics UK Consortium (COG) release specimen data by date of test taken - so we can track numbers over time.

NOTE: COG specimen data contain some duplicates (ie. more than 1 test per person) but nums consistent w PHE & trends still evident. England data only below
655 spotted tests of S.African & 497 of Indian variant(s) - but clear v rapid increase in Indian variant in 3 wks to 17 Apr

Most are travellers (PHE), but each carries a risk of onward transmission if traveller infects houshold or doesn't isolate

herefordtimes.com/news/national/…
Read 9 tweets
27 Apr
Short THREAD on Covid-19 Variants in ENGLAND:

The Sanger Institute has just released webpages that let you explore genomes that they sequences every week...

I had a look - two variants are currently growing "S Africa" and "India" but v small numbers. 1/7
This chart show the numbers of potentially worrying variants sequenced each week.

The recent rapid growth of the India variant (B1617) & the highish, steadier, numbers of S African variant (B1351) are clear (not great).

Brazil variant (P1) almost negligible (good!). 2/7
These are small numbers.

But S African & Indian variants are growing in the context of overall numbers going down. So the *proportion* of sequenced cases that are these two variants is going *up* - and for the Indian variant - going up A LOT.

Should we be worried? 3/7
Read 9 tweets
26 Apr
In Dec, SAGE behavioural subgroup warned that people might reduce adherence to measures once vaccination programme under way and recommended a govt communication strategy to pre-empt this...

assets.publishing.service.gov.uk/government/upl… 1/3
However, this has not happened. Govt messaging around a cautious opening has been counterbalanced by the focus on the dates of the roadmap, lack of emphasis on protective behaviours & (partial!) vax numbers.

And sure enough, adherence is dropping - particularly in over 50s. 2/3
Yes, numbers are ok here right now - but soon we open up a LOT more indoor mixing.
Chile shows how opening too fast, even with high vax, can cause bad surges requiring new lockdown.

We need better communication - esp after THAT daily express letter.

theguardian.com/world/2021/apr… 3/3
Read 4 tweets
23 Apr
SHORT THREAD on JAPAN / OLYMPICS:

Japan is going through a major new Covid wave and this potentially puts the Olympics later this summer at real risk... (and of course Japan's large population!) 1/4
The sequencing data for Japan is sparse, but it does seem as if B117 (the "Kent, UK" variant) has become dominant there over last couple of months and that this might be behind the recent increase. 2/4

reuters.com/business/healt…
The other thing is that Japan is being very slow to vaccinate compared to other high income regions - Just over 1% of its population has received one dose of Covid vaccine so far.

This leaves it more exposed to surges from B117 (vaccines work brilliantly against B117). 3/4
Read 4 tweets
18 Apr
THREAD on VARIANTS, VACCINES & POTENTIAL FUTURES:

I’ve been looking at data on sequenced variants. I’ve also been thinking about our vax programme & India.

TLDR: the Indian variant needs to trigger surge testing in England. And India needs to be on red list. 1/23
Some dates: while over 60% of adults have had 1 dose of vax, we've got another ~15 weeks before *all* adults could have immunity from at least 1 dose.

And another 20+ weeks before all adults could be fully vaxxed. And we don't yet know what uptake will be in younger adults. 2/23
So what can variants do while we are vaxxing people?

We already know that B117 can infect some partially vaccinated people and (far far) fewer but still some fully vaccinated. edition.cnn.com/2021/04/14/hea… 3/23
Read 26 tweets

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