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jcbarret's profile
Jeffrey Barrett
Jeffrey Barrett
Jeffrey Barrett
@jcbarret

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Jeffrey Barrett

@jcbarret

Chief Scientific Officer, Nightingale Health. Formerly led the Covid-19 genomics initiative @sangerinstitute.

Helsinki
scholar.google.com/citations?user…
Joined February 2009

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    1. Jeffrey Barrett‏ @jcbarret 31 Dec 2020

      Out today: two academic publications (not yet peer reviewed) that formally test whether the new B.1.1.7 variant is more transmissible. Both conclude yes, about 50% more. 🧵

      62 replies . 979 retweets 2,193 likes
      Show this thread
    2. Jeffrey Barrett‏ @jcbarret 31 Dec 2020

      First, a pre-print led by @erikmvolz and @neil_ferguson at Imperial, which applied a variety of different models using both genome sequence data and the S-gene dropout data I've mentioned before.https://www.imperial.ac.uk/mrc-global-infectious-disease-analysis/covid-19/report-42-sars-cov-2-variant/ …

      12 replies . 39 retweets 164 likes
      Show this thread
    3. Jeffrey Barrett‏ @jcbarret 31 Dec 2020

      Comparing genomes (sparse and lagged) and S-gene dropout (dense and up-to-date) shows the same rapid expansion we all know about in London, the East and the Southeast.pic.twitter.com/LacwSnmDKI

      1 reply . 16 retweets 99 likes
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    4. Jeffrey Barrett‏ @jcbarret 31 Dec 2020

      Using different models (lots more detail in the paper), spatial resolutions, and either the genomes or S-gene dropout to track B.1.1.7, the conclusion is very consistent: about a 0.5 additive increase to R.pic.twitter.com/GNKGvzIsV1

      3 replies . 29 retweets 116 likes
      Show this thread
    5. Jeffrey Barrett‏ @jcbarret 31 Dec 2020

      Second, a preliminary report led by @MoritzGerstung and @harald_voeh, who adapted a hierarchical Bayesian model they made to study the rate of positive tests around England to consider separately B.1.1.7 and other lineages.https://virological.org/t/lineage-specific-growth-of-sars-cov-2-b-1-1-7-during-the-english-national-lockdown/575 …

      2 replies . 24 retweets 109 likes
      Show this thread
    6. Jeffrey Barrett‏ @jcbarret 31 Dec 2020

      We estimate proportion of B.1.1.7 in each region of England week-by-week from ~random genome sequences from the past few month. It rose early in the SE (e.g. Medway), later elsewhere (Milton Keynes), or is just arriving (Manchester).pic.twitter.com/hueBggAFTR

      2 replies . 10 retweets 75 likes
      Show this thread
    7. Jeffrey Barrett‏ @jcbarret 31 Dec 2020

      Then we use those estimates to split the observed positive test rates each day into B.1.1.7 and other lineages, so we can study their different growth patterns over time.pic.twitter.com/lsGvBhrMrQ

      2 replies . 12 retweets 71 likes
      Show this thread
    8. Jeffrey Barrett‏ @jcbarret 31 Dec 2020

      Finally, as in the other paper, we can model the R number. If > 1 the epidemic is growing, < 1 shrinking. And consistently (a) B.1.1.7 is 50% higher than others and (b) it was often > 1 during the November lockdown in England.

      2 replies . 24 retweets 104 likes
      Show this thread
      Jeffrey Barrett‏ @jcbarret 31 Dec 2020

      In both papers, if we look across all English regions, in the overwhelming majority B.1.1.7 expands during lockdown while other lineages contract. We almost never see the reverse. Conditions during lockdown were usually enough to suppress older variants, but not B.1.1.7.pic.twitter.com/C01jdCe4il

      3:31 am - 31 Dec 2020
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      24 replies . 172 retweets 305 likes
        1. Jeffrey Barrett‏ @jcbarret 31 Dec 2020

          When you get consistent answers from different statistical models, that's usually a good sign that the findings are robust. As B.1.1.7 is detected around the world, I hope these analyses will be useful for countries confronting this more rapidly spreading variant.

          19 replies . 49 retweets 234 likes
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        2. Cassandra Noel ☾‏ @CNDCapeCod 31 Dec 2020
          Replying to @jcbarret

          @_JennLester_ this is all terrible news and absolutely reflects what we are seeing in the Boston area

          3 replies . 3 retweets 8 likes
        3. Eli Klein‏ @TheEliKlein 1 Jan 2021
          Replying to @CNDCapeCod @jcbarret @_JennLester_

          In Boston you’re seeing lockdowns fail as they have consistently throughout the US. It has nothing to do with this new Covid variant

          5 replies . 0 retweets 20 likes
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        2. Jennifer Everest‏ @jennyeverest1 31 Dec 2020
          Replying to @jcbarret

          The children were at school then - it wasn’t a ‘proper’ lockdown. Is this the reason? Lots were getting tested.

          0 replies . 0 retweets 14 likes
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        2. Stephanie Armour‏Verified account @StephArmour1 31 Dec 2020
          Replying to @jcbarret

          So, if I’m reading this correctly, lockdowns don’t suppress the variant? Any theories on this?

          7 replies . 0 retweets 12 likes
        3. Information Junkie  🇺🇦 🇺🇸‏ @JustTheFacts37 1 Jan 2021
          Replying to @StephArmour1 @jcbarret

          Would be more precise to say that the current version of lockdowns aren’t sufficient to drive Rt under 1.0 Mechanism of increased transmissibility isn’t yet fully known, but one theory is that it makes children, less affected by lockdowns, more infectious than other strains

          2 replies . 3 retweets 116 likes
        4. Show replies
        1. BioPharmGuy‏ @BioPharmGuy 1 Jan 2021
          Replying to @jcbarret

          Fair enough that this variant has spread faster, but we don't know if it's due to the virus itself or the types of people who first came down with it, do we? If it took hold amongst virus skeptics, and passed among them freely and quickly, wouldn't that alone lead to more spread?

          0 replies . 0 retweets 2 likes
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        2. Ryan J. Hope‏ @ryan_j_hope 1 Jan 2021
          Replying to @jcbarret

          Did you control at all for lockdown fatigue? And the festive season?

          1 reply . 0 retweets 2 likes
        3. Ryan J. Hope‏ @ryan_j_hope 1 Jan 2021
          Replying to @ryan_j_hope @jcbarret

          Okay it was “English national lockdown from November 5 to December 2 2020.” So festive temptations won’t factor into it.

          1 reply . 0 retweets 2 likes
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