Jon Deeks Profile picture
24 Nov, 16 tweets, 5 min read
@BBCr4today invited me to speak about lateral flow tests this morning (can listen at 0650). All government plans are now about using tests to "release" people - this depends on reliability of negative result. This is what the manufacturer says:

1/16
The PHE Porton Down - Oxford University report included this graph showing sensitivity would be 58% when the test is delivered by a trained test-and-trace centre staff member. This is in symptomatics - not asymptomatics.

2/16
The Government's 77% sensitivity combines the other two groups - tests done by Porton Down lab staff, and tests done by NIHR Research Nurses - i.e. the experts and completely ignores the 58% group. That seems completely wrong.

3/16
Remember that only 43 of the ~2500 people in the PHE Porton Down studies were asmyptomatic -data for other lateral flow tests shows they miss 10-20% more asymptomatic cases than symptomatic cases. So saying that we will miss at least 40% of cases seems very conservative.

4/16
This means negative results DO NOT RULE OUT INFECTION. THe risk of infection is probably halved in test negatives compared to the whole group.

Some might recall Dave Sackett's SnNOut - you need a high SeNsitivity test for a Negative result to rule Out infection.

5/16
Even the manufacturers are saying this - this is the third paragraph in their Instruction for Use sheet.

6/18
The argument that the infected cases that are missed are Not Infectious is a HOPE and not a FACT. There is no data to support this, and it will be incredibly difficult to do studies to establish this.

7/16
Because lateral flow tests are only positive when viral levels are really high, they miss people who never get that high, and are only positive in others on one or two days. PHE Porton Down said that the lowest level of detection for Innova was about equivalent to 25 Ct.

8/16
Now @DHSCgovuk @grantshapps @MattHancock @BorisJohnson and others are coming up with strategies using the negative results from asymptomatics in various strategies apparently TO KEEP US SAFE

9/16
The evidence is stacked against these working. They may detect a fraction of missed infections, but will not detect enough TO KEEP US SAFE

We need proper evidence based strategies to do this - based on understanding viral dynamics, and they will not work with these tests

10/16
The only answers @grantshapps had on @r4Today at 0824 - suggested we could confirm results with PCR (but if we are going to do that why use a lateral flow test??) and that the tests are getting better and better (really - I thought we had bought a lot of the same ones??)

11/16
Also that we have learned lots from Liverpool (what studies, what results, what research questions, what reports - please tell us too??)

Complete non-answers.

12/16
by the way, current WHO Guidance on Lateral Flow Tests says this, and the WHO EDL is likely to contain an explicit statement "negative tests cannot be used to rule out infection"

13/16
Feels like the Government is still in Pantomine season, they think that lateral flow tests are Cinderella's slipper and that we will soon reach the "Happily Ever After" page.

14/16
Its more like this (sorry trying to use as many media modes to get this important message over)

15/16
Lets stop the Pantomine and look at the clear evidence and use it.

Some of the audience won't be there for the "Happily Ever After" unless we do.

16/16

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More from @deeksj

11 Nov
INNOVA test – time for critical appraisal of the report

What does the report say about the test and should we believe it?

1/20

ox.ac.uk/sites/files/ox…
There are a lot of data and studies reported - difficult to get your head round. Grateful to CI for talking to me this afternoon. He has worked at incredible speed to meet deadlines and says full report is forthcoming – there is more data and description to be added.

2/20
Phase 2 – spiked samples in controlled laboratory conditions

Phase 3a – samples from hospitals tested in controlled laboratory conditions

These do not tell us how well tests work in real world – important to do to move forward to what happens next, but pass by them now.

3/20
Read 21 tweets
10 Nov
How well is the Innova test working in Liverpool?

This is a speculative calculation informed by data available from Liverpool. The source is the Liverpool mayor - reported 23,170 tests done, with 0.7% positive (so about 162) here.

liverpoolecho.co.uk/news/liverpool…
Presume specificity 99.6%

No sensitivity data for this test - @UKPHE has data but not public

I estimate sensitivity of 75% based on independent evaluations done for WHO of other similar LFIA tests (range from 50% to 90%) - but in symptomatic patients

finddx.org/covid-19/sarsc…
Using a prevalence of 400 per 100,000 you get the following 2x2 table:
Read 5 tweets
1 Nov
How well will these 15-minute rapid tests Boris mentioned work? (quick answer – we don’t know)

The Innova test was mentioned this week in Telegraph.
telegraph.co.uk/news/2020/10/1…

and I presume was on Boris’s list of the tests last night.
We are updating our Cochrane review and have been through our searches. There are no pre-prints or published studies of this test.

There are 2 studies – 1 from the company Instructions for Use (IFU) and 1 from PHE Porton Down.

Test is made by Xiamen Biotime Biotech in China.
Quick Critical appraisal of PHE Porton Down study:
1)Is the study relevant? Can’t tell.
2)What do the results mean? Can’t tell.
3)Should we believe the results? Can’t tell.
(please give us the full report!!!)
Read 11 tweets
1 Nov
The PM claimed that they have validated these new 15min antigen tests – what is the @dhsc @phe validation process?

15 Aug ministers commissioned new process at PHE Porton Down in collaboration with Oxford University. Protocol here (updated 23 Oct).

gov.uk/government/pub…
3 phases:

1 document review

2A Test 60 spiked saliva samples (n=15x4 dilutions)+71 -ve samples

2B Test against seasonal coronaviruses

3 Lab study of 1000 negatives and 200 positives sourced by Oxford University Hospitals. -ves fresh (<48hr) saliva samples +ves frozen
“Phase 3 findings will be reported to the Oversight Group, with DHSC and ministers using this information and any recommendations to inform potential purchasing decisions.”

Little detail is public – full results below - criteria for “pass” and “fail” for Phase 3 not stated
Read 6 tweets
22 Sep
BMJ Editorial @bmj_latest on why Moonshot is scientifically unsound.

with Tony Brookes and @AllysonPollock

has just been published here

bmj.com/cgi/content/fu…

#Moonshot @UoB_IAHR @unibirm_MDS

1/10
Moonshot plans uses point of care tests (POCT) approved for home use which don’t yet exist.

Proposals use computer modelling not empirical evidence. Understanding model assumptions is critical.

Widely claimed model is based on using LESS ACCURATE TESTS. This is WRONG.

2/10
The model assumes new POCT is positive in people who have INFECTIOUS Covid-19

and negative in both those who don’t have COVID-19 infection at all

and negative in those who have NON-INFECTIOUS Covid-19.

(infectious means you can pass the virus to somebody else).

3/10
Read 10 tweets
18 Sep
What type of COVID-19 test do you think this is? @MHRAgovuk please have a look Image
Some antigens are proteins, so looks like if could be an antigen test, and a saliva one as well, and it is CE marked.

It's a dream ...
But it is actually an antibody test. Misleading?

(antibody tests have antigens (proteins) inside that detect the antibodies - so they are telling us what is inside it rather than what it detects).

Dream over.
Read 4 tweets

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