New preprint: compensatory mutations are associated with increased growth in resistant samples of M. tuberculosis. Philip Fowler, 22nd June 20238th December 2023 In this preprint, Viki Brunner shows how, using the large CRyPTIC dataset, she can recapitulate the result that susceptible M. tuberculosis samples grow faster than samples that are resistant to rifampicin (and do not have any mutation that could compensate for that effect). Using the Fisher’s exact test, she is able to confidently identify 51 putative compensatory mutations, having corrected for linkage disequilibrium, partly by insisting each mutation is homoplastic. Twelve of these hits have not previously been described. There is then a very interesting story about how it appears at first glance that RIF-resistant samples with compensatory mutations grow better not just than those without, but also better than susceptible samples. When you break this down by lineage, it appears confounded with Lineage 2 and also with some clades in our dataset. Our data suggest there is something interesting here, but more detailed experimental work will likely be needed to disentangle exactly what is going on. Share this: Click to share on X (Opens in new window) X Click to share on Bluesky (Opens in new window) Bluesky Click to email a link to a friend (Opens in new window) Email Click to share on LinkedIn (Opens in new window) LinkedIn Click to share on Mastodon (Opens in new window) Mastodon Related antimicrobial resistance group publication research tuberculosis
antimicrobial resistance FowlerLab at ESM 2024 1st July 20241st July 2024 Three of us (Dylan Adlard, Dylan Dissanayake and Philip Fowler) attended the 44th Congress of… Share this: Click to share on X (Opens in new window) X Click to share on Bluesky (Opens in new window) Bluesky Click to email a link to a friend (Opens in new window) Email Click to share on LinkedIn (Opens in new window) LinkedIn Click to share on Mastodon (Opens in new window) Mastodon Read More
antimicrobial resistance New preprint: predicting rifampicin resistance 16th August 202416th August 2024 In this preprint we train a series of machine learning models on protein mutations found… Share this: Click to share on X (Opens in new window) X Click to share on Bluesky (Opens in new window) Bluesky Click to email a link to a friend (Opens in new window) Email Click to share on LinkedIn (Opens in new window) LinkedIn Click to share on Mastodon (Opens in new window) Mastodon Read More
molecular dynamics New Publication: Alchembed 12th June 2015 In much of my research I’ve looked at how proteins embedded in cell membranes behave. An… Share this: Click to share on X (Opens in new window) X Click to share on Bluesky (Opens in new window) Bluesky Click to email a link to a friend (Opens in new window) Email Click to share on LinkedIn (Opens in new window) LinkedIn Click to share on Mastodon (Opens in new window) Mastodon Read More