PhD in Bioinformatics | Postdoc @IceLab_umea Using AI/ML to discover new antibiotics against resistant bacteria 🦠 #AMR #RNAseq #AI #MachineLearning
Umeå, Sweden
Joined September 2018
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🦠 Bacterial gene expression is not a reliable proxy for protein levels, at least not under stress.
Our new paper in PNAS shows how far mRNA and protein diverge, across three pathogens and 10 stress conditions.
pnas.org/doi/10.1073/pnas.26…
#Pathogen #RNA #protein #MachineLearning
💻 Beyond the biology, this gives the field a paired mRNA–protein dataset across multiple pathogens and stress conditions, exactly the kind of data needed to train machine learning models (what I'm working on now in my postdoc).
📢Thrilled to announce that PANORAMA has been published in @PLOS! An open-source method to predict & compare biological systems across bacterial pangenomes.
🧵 Here's what it does 👇
#Bioinformatics #Pangenomics #ComparativeGenomics #Microbiology #OpenScience
8/ Co-author
Jean Mainguy, Laura Bry, Quentin Fernandez De Grado, Yazid Hoblos, @vallenet, Alexandra Calteau
📄Paper: journals.plos.org/ploscompbi…
💻Code: github.com/labgem/PANORAMA
📚Docs: panorama.readthedocs.io/late…
Jérôme Arnoux @jpjarnoux.bsky.social retweeted
Fresh HMM haul just dropped 👇
Download release 19.0 of the NCBI protein profile Hidden Markov models (HMMs)! This release contains 18,513 HMMs maintained by NCBI and 465 new HMMs since release 18.0. Learn more about what's new: bit.ly/4aIXRDs
ALT Background of colorful squares with DNA base pair letters represented in the squares. Text says: HMM Release 19.0. Download now!
Happy to announce that I've started my postdoctoral position at @IceLab_umea! 🎉 My project focuses on developing AI models (ML/DL) to predict protein levels from RNA-seq data in bacterial infections, to identify new therapeutic targets to combat #AMR🦠🤖 #AIforScience #Postdoc
Jérôme Arnoux @jpjarnoux.bsky.social retweeted
Happy to have presented 20 years of microbial genomics with MicroScope @jobim2024
@IFB_Bioinfo @Genopole @GenoUMR_GM @CEA_Jacob_
