Would love feedback on a new NCBI-BLAST service we are launching today: sky-blast.com It's the same BLAST executable and DBs provided by NCBI with a replica of the NIH's interface - providing an alternative to US gov service that's less congested, faster & more reliable

Over the last 2 weeks, I took a deep dive into Evo 2, Arc's Genomic Foundation model. But, I couldn't find a crisp primer on Evo 2 that covered the decisions for the ML architecture, the inference-time scaling results or the mechanistic interpretability results. So, I wrote one!

A monumental collaborative effort with many incredible people ☺️ Proud to be part of this! arxiv.org/abs/2506.06536

The new version of MetaPhlAn (v4.2.2) released! 📌taxonomic profiling of long-read metagenomes for the first time 📌new version of the MetaPhlAn db (vJan25_202503) containing >21k new SGBs Try it out & hutlab and we are looking forward to your feedback! forum.biobakery.org/t/metaphlan-4-…

Our lab is hiring! We are looking for a postdoc in the area of immunology/microbiology+ML, or in pure method/software development. More information about our lab at: mourisl.github.io

We're thrilled to announce that one of our keynote speakers at #WABI2025 will be the inimitable Ben Langmead! wabiconf.github.io/2025/talks/tal…. Ben's keynote is titled "We are what we index; a primer for the Wheeler Graph era", and it's sure to be a whirlwind tour of full-text indexing!

The simplest sequence model unchained in PRX.

Pleased to see that this time, three Czech ladies are in the list of the European Research Council (ERC) Advanced Grants, and I am very proud to be among them ;). Congrats to Kateřina Čapková a Anna Durnová!

WATCH: It's not every day you get to see a test reactor pulse!

Very good point. But the cognitive impact of technology is a recurrent question over at least the last 75 years (more recently for Search—see article below).

Microsoft released a new terminal text editor! It's called Microsoft Edit, it's open source, it's tiny (about 250KB as a Rust binary) and it works cross-platform. They built it for Windows 11 - I've been trying it out on my Mac and it's a nice alternative to Vim or nano

🧵1/n Estimating mutation rates using k-mers is fast—but what happens when repeats dominate the genome? In a new preprint, Haonan Wu, Antonio Blanca, and myself propose a *repeat-aware* estimator that's accurate even in centromeres.

With Giulio Ermanno Pibiri and 𝕐, we are about to release Fulgor v4.0.0, which is much faster to build and query, without affecting its memory efficiency. You can find all the information in our #WABI2025 paper (bit.ly/3T6TWqw). 🧵 (1/7)

What determines who a phage can infect? We tackled this question for temperate phages of Klebsiella — a bacterial pathogen — using a genome-wide association study (GWAS) and a massive protein testing effort. 👇 A thread!

1/ 🧵Can protein language models reason about evolution, not just model it? We built a 24 M-param PLM, Phyla, that reconstructs phylogenetic trees better than existing PLMs. Details & links in 2/👇

Newly elected EMBO members. Congratulations to Plevka Lab ! embo.org/press-releases…

If anyone needs a clear explanation of how to do standardised antibiotic susceptibility testing (MICs) properly then I highly recommend this article nature.com/articles/s4425…

📢 Calling all nomadic scientists! This summer, we are building the Czexpats Infoportal – a one-of-a-kind resource by and for scientists who live and work across borders 👩‍🔬 🗺️ Want to help others navigate life in science abroad? Join our Infoportal Hackathon and help us

🧬🪦“SRA is the graveyard for sequence data.” Overheard at Speculative Technologies's Nerd Party yesterday.🥳 Sequencing is cheaper than ever, so we generate massive datasets, extract a sliver of publishable insight, and the rest gets buried. It's about time we build a scalable infrastructure

Why did MIT CSAIL 6.001 switch to Python from Scheme? This exerpt from the International Lisp conference of 2009 cuts deep wingolog.org/archives/2009/… via The Hacker News The "debate" had an interlude, in which Costanza asked Sussman why MIT had switched away from Scheme for