Slack / Private Message Drop — page 446

That'd be fun. [2021-01-23 18:03:14] [Kristian Andersen] [thread - ID: 2021-01-23 17:49:05] Key question here - in an area of high standing immunity or low? [2021-01-23 18:38:49] [Robert Garry] [thread - ID: 2021-01-23 17:55:47] @Eddie Holmes moment of weakness :scream_cat: [2021-01-23 18:40:16] [Eddie Holmes] [thread - ID: 2021-01-23 17:55:47] @Eddie Holmes Don't worry - won't be part of the GIPA so your dirty secret is safe. [2021-01-24 02:41:44] [Eddie Holmes] Did you get this one? [shared file(s): Screen Shot 2021-01-24 at 9.41.08 pm.png] [2021-01-24 03:46:09] [Andrew Rambaut] [thread - ID: 2021-01-23 17:49:05] @Andrew Rambaut Need to check this but looks like it could be an area that was hit hard in the last wave. [2021-01-24 03:48:05] [Andrew Rambaut] No. He is only offering the golf lesson to you by the looks of things. [2021-01-24 05:24:10] [Robert Garry] No email from "John" either, but he seems nice. [2021-01-24 06:28:17] [Robert Garry] So, these are the papers {plus another somewhat similar one focusing more on the deletions that I was reviewing for one of the glams] that triggered my unfortunate use of the "Q word," an old lazy bad habit from HIV days. https://www.nejm.org/doi/full/10.1056/NEJMc2031364 https://www.nejm.org/doi/full/10.1056/NEJMc2031670 As mentioned, we have a similar chronic patient - 8 months with positive SC2 pcrs. [shared file(s): image.png] [2021-01-24 06:36:07] [Robert Garry] The patient above is different than the second series of patients beow. First, the mutants don't show up til day 75 -they show up in a group incuding Eeek, and a bigger deletion at Y145. Other variants with diff constellation of mutations then come to dominate at different times, including a "transient" larger deletion that includes L18. Would have really been nice if the authors had given a little more info about depth of coverage etc. [shared file(s): image.png] [2021-01-24 06:44:05] [Robert Garry] The difference in the second series is that in every case most of the variants are present in the first sample. Other mutations get added later but these are outside of spike. With one exception you don't see a mutation appear and then "disappear." The Tulane patient has a spike deletion in the first sample [A243/L244] and adds a few substitions in spike on the second sample taken three months after the first. More KGA seq to come on later samples.