antimicrobial resistance New paper: Validation of an optimized Oxford Nanopore sequencing workflow versus Illumina for mycobacteria from primary MGIT culture Philip Fowler, 24th August 202624th August 2026 Most genetic sequencing of Mycobacteria, including Mycobacterium tuberculosis, has for historical reasons used short-read technology,… Continue Reading
antimicrobial resistance New preprint: using genetics to analyse ESBL infections in a neonatal ICU ward Philip Fowler, 7th July 20267th July 2026 In this preprint, Melody Parker as part of her DPhil, has analysed a series of… Continue Reading
New preprint: evaluating a laboratory workflow for sequencing Mycobacteria using long-read sequencing Philip Fowler, 7th February 20269th April 2026 In this preprint, we describe and evaluate a laboratory workflow for sequencing Mycobacterial samples using… Continue Reading
antimicrobial resistance New paper: how well can we predict AMR in tuberculosis samples? Philip Fowler, 16th December 202516th December 2025 This paper just published in Microbial Genomics examines how well our software tool, gnomonicus, predicts… Continue Reading
antimicrobial resistance New preprint: Predicting pyrazinamide resistance in M. tuberculosis using a graph convolutional network Philip Fowler, 29th October 202530th October 2025 In previous work we’ve used “traditional” machine-learning approaches, like XGBoost, to learn and therefore predict… Continue Reading
New paper: Evaluating 12 WGS analysis pipelines for MBTC Philip Fowler, 21st October 202529th October 2025 Ruan Spies did a careful systematic analysis of the publicly-available pipelines that claimed to process… Continue Reading