@abalmer.bsky.social
🚨 New paper in eLife!
We analysed >100k malaria parasite samples to track the rise of artemisinin resistance.
Resistance is now emerging in Africa, echoing SE Asia 10–15 yrs ago.
Genomic surveillance is key to staying one step ahead!
elifesciences.org/articles/105...
The framework works across species & drug classes — and the code is open-source. Would love to hear feedback from those working in AMR surveillance!
Preprint: www.biorxiv.org/content/10.1...
Applied to 3,600+ pneumococcal isolates, AMR Cartography revealed lineage-specific resistance and the genetic changes driving multidrug resistance.
30.09.2025 08:47 — 👍 0 🔁 0 💬 1 📌 0
Instead of treating correlations between drugs as noise, we use them as insight.
That lets us see:
• subtle shifts before breakpoints
• co-resistance patterns
• collateral sensitivity trade-offs
• identify genetic markers for resistance
In our new preprint we introduce AMR Cartography: a way to map full resistance profiles into simple 2D maps.
30.09.2025 08:47 — 👍 1 🔁 0 💬 1 📌 0By ignoring that structure, we lose the early warning signs of resistance emerging — and miss how resistance evolves in real populations.
30.09.2025 08:47 — 👍 1 🔁 0 💬 1 📌 0
New Preprint! 🚨
Most AMR data gets collapsed into “resistant” vs “susceptible.”
But resistance isn’t a simple switch — it changes gradually, and often in correlated ways across drugs.
[New pre-print🚨] When a single genotype (pbp) confer resistance (penicillin, amoxicillin, cephalosporins) to multiple antibiotics, how do we make sense of genetic changes and their impact on AMR?
A new concept - AMR cartography is invented.
www.biorxiv.org/content/10.1...
New preprint: Antimicrobial Resistance Cartography — a simple way to map multivariate drug-resistance phenotypes, using data from @CDCgov.
www.biorxiv.org/content/10.1...
