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Coronavirus in the UK - news, lockdown and discussion

This new strain, VUI-202012/01, doesn't show up in standard testing, random positive samples are subject to genetic sequencing, which takes longer.

VUI-202012/01 was discovered in September 2020 by the COVID-19 Genomics UK (COG-UK) consortium, which undertook random genetic sequencing of positive COVID-19 samples around the United Kingdom. The consortium is a partnership of the United Kingdom's four public health agencies and the Wellcome Sanger Institute and 12 other academic institutions.[4]

The consortium was set up in April 2020 and has sequenced 140,000 virus genomes from people infected with COVID-19. It uses the data to track outbreaks, identify variant viruses, and publishes a weekly report.

WIKI
 
That's helpful, thanks...I just don't believe a word that Johnson says and, therefore, suspect that they were aware of this earlier than they're saying but were looking at other economic and political factors.

I wouldn't believe it, if only the government was saying it.

I would recommend watching the Andrew Marr Show on iPlayer and see the interviews with the WHO expert & Dr Susan Hopkins from Imperial College, who heads up PHE's covid response.
 
I wouldn't believe it, if only the government was saying it.

I would recommend watching the Andrew Marr Show on iPlayer and see the interviews with the WHO expert & Dr Susan Hopkins from Imperial College, who heads up PHE's covid response.
Fair play, but i don't watch Marr.
 
Well, if there was a General Election tomorrow, and the electorate consisted of 8 year olds, polling in the chilango household appears to suggest a Labour landslide...

chilango I do hope you issued a strongly worded communique denouncing the reformist and telling them Santa only visits anarchist-communists so they had better quickly re-think their political position?
 
My dad who's a retired biochemist says that if as has been mentioned in some news stories this new strain seems to be hitting younger people harder
I've seen no credible suggestions that this is a feature of the new strain.
Some people are getting confused.

There is currently no indication that VUI-202012/01 (B.1.1.7 lineage characterised by 17 mutations including replacements on N501Y and P681H with a double deletion at H69/V70) is more infectious amongst the young in particular. Only that it may have higher transmissivity, have higher ACE2 affinity and (possibly) improved anti-body evasion. More detail in the latest phylogenetic analysis:

The South African 501.V2 variant (shares a couple of mutations with VUI-202012/0, but not all), which appears to be the main driver of the current wave there, is perhaps more concerning as it appears to spread faster, results in a higher viral load, is possibly more severe among young adults and the mutations therein may improve immune escape.
Here’s what you need to know about the new coronavirus variant, now confirmed in SA
 
@chilango I do hope you issued a strongly worded communique denouncing the reformist and telling them Santa only visits anarchist-communists so they had better quickly re-think their political position?

e87eeb09-03bb-4fd0-82e4-5eb8ce62dcb2-m.jpg
 
Usel; thanks.
So, notified Govt. on the 11th, then?

They report to the government weekly, on Fri. 11th they advised the government of their concerns, hence London & much of the SE being rushed into tier 3.

On Fri. 18th they advised the government that their research & modeling had now confirmed how bad things were, hence London & much of the SE being rushed into tier 4, and both Scotland & Wales taking further action.
 
Then more academic partner research and modelling before announcements when evidence was in, then final report Friday just gone.
Yep, but Hancock would have been aware of the work "in late November" to see why North Kent was stubbornly not responding to intervention?
 
This is all developing a little too rapidly for my liking. Italy blocking travel makes me think I should not bother continuing with my journey and just try and get home

If you're constantly worried about being able to get home again it seems unlikely you'd enjoy your trip much.
 
Yep, but Hancock would have been aware of the work "in late November" to see why North Kent was stubbornly not responding to intervention?

He did respond by putting Kent into tier 3 straight after lockdown.

There's fucking plenty of reasons to kick this government over it's response to covid, but on this occasion they seem to have moved very quickly, to a rapidly changing situation.
 
This new strain, VUI-202012/01, doesn't show up in standard testing, random positive samples are subject to genetic sequencing, which takes longer.



WIKI

Due to the increased prevalance of that strain, I think they've developed a crude method to check for it by proxy using more standard testing rather than proper genomic analysis.

The normal test checks for three things. When the S part of the test fails to detect what its looking for, they are now using that as a proxy for it being the new strain. But there are some other reasons why some tests have always failed to pick up the S bit. So its a noisy signal. However, once prevalance of the new strain reaches a certain level, it becomes safer for them to assume this isnt the usual background noise, and that it can be used as a rough indicator that its the new strain.

I deduced this mostly from blurb that accompanied ONS data. The same data that was used to make one of the slides yesterday, but that slide only included the southern regions and the full data covers the whole country by region. In this case it seems that mid-November was the tipping point where this methodology could actually be used with more confidence:

This analysis was produced by Sarah Walker at the University of Oxford. Swabs are tested for 3 genes present in the coronavirus: N protein, S protein and ORF1ab. Each swab can have any one, any two or all three genes detected. Positives are those where one or more of these genes is detected in the swab other than tests that are only positive on the S-gene which is not considered a reliable indicator of the virus if found on its own. The new variant of COVID-19 has genetic changes in the S gene. This means the S-gene is no longer detected in the current test, and cases that would have previously been positive on all three genes are now positive only on the ORF1ab and the N gene (not the S gene). There are also other reasons why a swab may be positive for only these two genes, including lower viral load in the sample, which is why we have always seen a small percentage of this type of positive result. We have been advised that the dropping of the S-gene became a reliable indicator of the new variation in COVID-19 from mid-November (18th November in the attached Table). Prior to that, the data should not be read as being an indicator of the variant. However, we have published a fuller series for transparency. There has recently been an increase in the percentage of positive cases where only the ORF1ab and N genes were found and a decrease in the percentage of cases with all three genes. The data shows the new variant was evident in cases from 18 November onwards. We can use this information to approximate the growth of the new variant.

From Percentage of COVID-19 cases that are positive for ORF1ab and N genes - Office for National Statistics

They will still be doing the proper genomic analysis on various samples from various settings, but I dont have any proper data from those yet. And is useful for them to have a cruder and slightly less reliable, but easier and quicker means of estimating new variant levels.
 
He did respond by putting Kent into tier 3 straight after lockdown.

There's fucking plenty of reasons to kick this government over it's response to covid, but on this occasion they seem to have moved very quickly, to a rapidly changing situation.
Exactly why I'm sceptical about this 'we didn't know' until 2 days ago line.
 
As soon as some of these new variant cases are detected in other areas in any significant numbers surely they'll go into Tier 4 as well? Can't be long now...

What counts as a significant number?

There are some logical holes in their current approach, if the new strain has a significant advantage. They are inviting the new variant to grow in other regions, where they already know it is present at some level. And if the new variant does not take off big time in those other regions, that might imply that its not that much more transmissible than other strains, and that its growth in the south east is more because it happened to emerge in the right place at the right time than anything else.

My view is still limited because I expect they've seen the growth of this new strain in some very specific contexts and settings, such as hospital outbreaks, and have formed some of their conclusions and fears based on whats been seen in those outbreaks. Too much guesswork on my part due to a lack of info.
 
And we really don't want anyone who've just received the vaccine, to develop this new strain.
But it seems whenever I think of worst case scenarios lately , they then happen.
 
How bad the transmission rate is only became apparent on Friday, England, Scotland & Wales reacted yesterday, now others are.

But, this strain is probably already spreading in Europe, as per posts on this thread, made this morning.

It has certainly been found in Holland & Denmark, and likely explains the rapid raise in cases, in other countries too.
Yep. 'Prepare for tier 5' would be a good message for the rest of the UK as well.
 
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Sky News has got hold of the minutes from the Nervtag meeting last Friday, which confirms they think the transmission rate to be 71% above other strains, and provides a range of how it could increase the 'R' number, the scale being between 0.39 to 0.93. :eek:
 
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