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K_G_Andersen's profile
Kristian G. Andersen
Kristian G. Andersen
Kristian G. Andersen
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@K_G_Andersen

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Kristian G. AndersenVerified account

@K_G_Andersen

Infectious diseases & genomics. Immunologist in (voluntary) exile. Minimal sarcasm. Fierce HOA (Hater of Acronyms).

La Jolla, CA
andersen-lab.com
Joined November 2014

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    Kristian G. Andersen‏Verified account @K_G_Andersen Feb 26

    A lot of SARS-CoV-2 variants, "scariants", chatter over the last few days. Let's cut through the atrocious reporting and sloppy science, since there are signals in the underlying data that are of interest and may, or may not, be important. 🧵👇pic.twitter.com/va0Vdr9a9n

    4:41 PM - 26 Feb 2021
    • 1,807 Retweets
    • 4,531 Likes
    • scottyb internet pirate, M.A., M.S. ha Dumpster Defender Kevin is getting vaccinated benishii 🍄🦄💨 aka Sjah Massamapoepoepoe Pamela Matías Paul Driscoll Carlos Barreda #SanidadPública
    90 replies 1,807 retweets 4,531 likes
      1. New conversation
      2. Kristian G. Andersen‏Verified account @K_G_Andersen Feb 26

        First off - viruses mutate all the time, creating "variants". The vast (and I mean vast!) majority do nothing, so when you hear SARS-CoV-2 variant/lineage/mutate, Don't Panic! #42. A lot has been said about this already - here's a great article:https://www.nature.com/articles/s41564-020-0690-4 …

        11 replies 138 retweets 659 likes
        Show this thread
      3. Kristian G. Andersen‏Verified account @K_G_Andersen Feb 26

        Number one priority - there's a desperate need for coordination and regulation when it comes to SARS-CoV-2 variants. The UK and South Africa showed us how to do this and @WHO just came out with working definitions too. https://www.who.int/publications/m/item/covid-19-weekly-epidemiological-update …pic.twitter.com/5Hj1q5lVtc

        2 replies 77 retweets 419 likes
        Show this thread
      4. Kristian G. Andersen‏Verified account @K_G_Andersen Feb 26

        I think it's important for the US to have a system in place - managed and overseen by e.g., @CDC_AMD with an external committee. I see the need for four main classifications: Variant Variant of Interest (VOI) Variant under Investigations (VUI) Variant of Concern (VOC)

        7 replies 89 retweets 550 likes
        Show this thread
      5. Kristian G. Andersen‏Verified account @K_G_Andersen Feb 26

        The need for coordination is critical. Too many examples lately of scientists finding something (they find) interesting and then heading straight to the media - with limited data, no studies available, and no coordination with local health departments. Don't do this. Seriously.

        14 replies 105 retweets 865 likes
        Show this thread
      6. Kristian G. Andersen‏Verified account @K_G_Andersen Feb 26

        It's key to remember that there is often a big difference between what's *interesting* vs what's *unusual*. If unusual, there's a difference between what's unusual vs what's *important*. Often, what's seen as interesting, isn't unusual, and unusual isn't necessarily important.

        4 replies 44 retweets 456 likes
        Show this thread
      7. Kristian G. Andersen‏Verified account @K_G_Andersen Feb 26

        So when it comes to variants, what's both unusual and important? SARS-CoV-2 variants of concerns (VOCs) that have increased transmission, increased virulence, or can evade immunity (whether vaccine-derived or natural) and public health measures, including diagnostics and drugs.pic.twitter.com/STMzy6i1tm

        8 replies 130 retweets 572 likes
        Show this thread
      8. Kristian G. Andersen‏Verified account @K_G_Andersen Feb 26

        Kristian G. Andersen Retweeted Kristian G. Andersen

        We have only three variants that fall into the "VOC" category - those first identified in the UK (B.1.1.7), Brazil (P.1), and South Africa (B.1.351). I have already talked about these a lot, so head over to this thread if you're interested:https://twitter.com/K_G_Andersen/status/1355689990487896065?s=20 …

        Kristian G. Andersen added,

        Kristian G. AndersenVerified account @K_G_Andersen
        Now the SARS-CoV-2 variants that were first identified in the UK (B.1.1.7), South Africa (B.1.351), and Brazil (P.1) have been found in the US, a couple of thoughts (i.e., speculation...) on what happens next, as I been getting many questions about transmission and immunity. 🧵👇 pic.twitter.com/2VZzGx19li
        Show this thread
        6 replies 84 retweets 346 likes
        Show this thread
      9. Kristian G. Andersen‏Verified account @K_G_Andersen Feb 26

        Now, recent "Variants of Interest" (VOIs). There are many, incl. those identified in California (B.1.429/427) and New York (B.1.526). VOIs are about identifying variants that *may* be important - which is different than monitoring the ones we *know* are important (the VOCs).

        1 reply 33 retweets 262 likes
        Show this thread
      10. Kristian G. Andersen‏Verified account @K_G_Andersen Feb 26

        To move from VOI ➡️ VOC requires evidence. A lot of evidence. The UK provides a stellar example of how exactly to go from VOI ➡️ VUC ➡️ VOC. Investigate, investigate, and continue to investigate - while accurately communicating importance and uncertainty through the process.

        6 replies 43 retweets 353 likes
        Show this thread
      11. Kristian G. Andersen‏Verified account @K_G_Andersen Feb 26

        Importantly though, as soon as you have enough evidence - which is never going to be perfect - move. And move fast. Which, again, the UK did. That requires coordination - and should never be done at the level of individual scientists.pic.twitter.com/81jjo4ZEhx

        6 replies 44 retweets 359 likes
        Show this thread
      12. Kristian G. Andersen‏Verified account @K_G_Andersen Feb 26

        So what should alert us to a VOI: 1. Variant with a lot of mutations (sidenote, not just spike - e.g., ORF1b P314L👇) 2. A variant with mutations we know are important 3. Rapid increase in frequency 4. Convergent evolution 5. Spread in areas of high levels of immunitypic.twitter.com/Wdr7TZtlJd

        1 reply 42 retweets 307 likes
        Show this thread
      13. Kristian G. Andersen‏Verified account @K_G_Andersen Feb 26

        Let's look at the two recent CA/NY variants (NOT VOCs!!) - all sloppy science and bad reporting, or is there something to it? I think there's something there - and consider both VOIs. The CA may be slightly more transmissible (~10-15%?) and the NY evade some immunity👇.

        3 replies 28 retweets 251 likes
        Show this thread
      14. Kristian G. Andersen‏Verified account @K_G_Andersen Feb 26

        "California" variant / B.1.429/427. - Key mutations - L452R and possibly W152C - Originated in summer, 2020 - Rose in frequency, beginning in November (around the time of surge) - Two independent lineagespic.twitter.com/IIUEFZwb3P

        4 replies 19 retweets 186 likes
        Show this thread
      15. Kristian G. Andersen‏Verified account @K_G_Andersen Feb 26

        Here are the two lineages, sharing a common ancestor ~summer. Also, a number of mutations split the two lineages (B.1.429 and B.1.427). Tree can be accessed here: https://nextstrain.org/groups/spheres/ncov/california?c=pangolin_lineage …pic.twitter.com/QhBPEEoFBk

        3 replies 11 retweets 167 likes
        Show this thread
      16. Kristian G. Andersen‏Verified account @K_G_Andersen Feb 26

        Here you can see the increase over time of B.1.429 and B.1.427. The surge in California actually starts *prior* to these lineages increasing in relative frequency. https://outbreak.info/situation-reports?country=United%20States&division=California&pango=B.1.429&selected=California&selectedType=division … https://outbreak.info/situation-reports?country=United%20States&division=California&pango=B.1.427&selected=California&selectedType=division …pic.twitter.com/RlkeeeQni7

        2 replies 19 retweets 172 likes
        Show this thread
      17. Kristian G. Andersen‏Verified account @K_G_Andersen Feb 26

        So what's going on here? Probably the surge is the primary driver of increasing frequency, but possibly also helped along by a slight increase in inherent transmissibility. The data is not conclusive though. Also, association with virulence and immunity = null. = VOI.

        1 reply 19 retweets 202 likes
        Show this thread
      18. Kristian G. Andersen‏Verified account @K_G_Andersen Feb 26

        "New York" variant (B.1.526) - this one is more interesting to me and likely of importance. - Two sub-lineages - one with E484K and one with S477N (known to be important) - Rapid rise in frequency of both - High levels of immunity in New York (high attack rate last spring)pic.twitter.com/VD5x5eifcH

        2 replies 48 retweets 211 likes
        Show this thread
      19. Kristian G. Andersen‏Verified account @K_G_Andersen Feb 26

        Here are the two sub-lineages - again, one with E484K ("Eek") and one with S477N ("Sean"). Tree can be accessed here: https://nextstrain.org/groups/spheres/ncov/new-york?c=pangolin_lineage …pic.twitter.com/C1jPnEk8HF

        2 replies 14 retweets 150 likes
        Show this thread
      20. Kristian G. Andersen‏Verified account @K_G_Andersen Feb 26

        Here you can see the increase over time of B.1.526 - full lineage + sub-lineages carrying E484K or S477N. Note, "Eek" increasing more rapidly than "Sean" - as we might expect, based on functional data. https://outbreak.info/situation-reports?country=United%20States&division=California&division=New%20York&pango=B.1.526&selected=New%20York&selectedType=division … https://outbreak.info/situation-reports?country=United%20States&division=California&division=New%20York&pango=B.1.526&muts=S%3AE484K&selected=New%20York&selectedType=division … https://outbreak.info/situation-reports?country=United%20States&division=California&division=New%20York&pango=B.1.526&muts=S%3AS477N&selected=New%20York&selectedType=division …pic.twitter.com/5XoMDk0owN

        3 replies 14 retweets 153 likes
        Show this thread
      21. Kristian G. Andersen‏Verified account @K_G_Andersen Feb 26

        Like the "CA" variant, terrible reporting, however, given the rapid increase in frequency of two independent sub-lineages carrying mutations that we know can evade some Ab immunity, in a part of the country with high levels of immunity 👇 = VOI that should immediately ➡️ VUI.

        4 replies 20 retweets 195 likes
        Show this thread
      22. Kristian G. Andersen‏Verified account @K_G_Andersen Feb 26

        In summary, we need to be *much* better at communicating research around SARS-CoV-2 variants - whether known or novel - especially as it relates to data, findings, interpretations, and importance. Finally, a collaborative and coordinated effort 👩‍🔬⚕️👨‍⚕️ to ⬇️confusion and ⬆️impact.

        18 replies 50 retweets 381 likes
        Show this thread
      23. Kristian G. Andersen‏Verified account @K_G_Andersen Feb 26

        ARRRRGGHHHH, I forgot the corgi! Sorry tweeps. Since @EvolveDotZoo informed me that he holds the copyright on Twitter corgis, I have something better for you today. Here's Noodle's (a) opinion on recent scariant reporting, and (b) her plan for the weekend. ☀️⛱️pic.twitter.com/8yGGiykDii

        25 replies 16 retweets 590 likes
        Show this thread
      24. End of conversation

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