We have been making some IQ-TREE wrappers...little did we know that it would inspire the IQ-TREE rapper to lay down some tracks: suno.com/song/9a4cc98d-…

Our paper out Cell: Structure-guided discovery of viral proteins that inhibit host immunity Congrats Erez Tzvi Yirmiya, Azita Leavitt, Gil Amitai 🎗️ 🇮🇱🎗️, our collaborators @ Kranzusch lab, and coauthors A 🧵 1/10 cell.com/cell/abstract/…

CASTER: Direct species tree inference from whole-genome alignments. Super proud to have made small contributions to this incredibly clever work by the amazing Chao Zhang and his PhD advisor S. Mirarab. science.org/doi/10.1126/sc…

Very happy our paper on CARD domains in gasdermin anti-phage defense systems is now published in nature 🥳 Thanks to all the people involved especially the Kranzusch lab and Sorek Lab nature.com/articles/s4158…

We just launched Corca—a collaborative math editor. The main idea: there’s no 'text editor' for math. If you want to work on equations on a computer, there’s no app designed for that—so the only real option is paper. ↓

Very nice to have Prof Rasmus Nielsen commenting on our recent work on Epstein-Barr virus/nasopharyngeal carcinoma evolution in southern China. Rasmus Nielsen National Science Review academic.oup.com/nsr/advance-ar…

Foldseek-Multimer is a strategy for complex-to-complex protein structure alignment to quickly perform large-scale structural comparisons between complexes. @thesteinegger elevyLab nature.com/articles/s4159…

I am elated to share that our PhyKIT protocols manuscript appeared on the cover of Current Protocols🥳🥳🥳 …rentprotocols.onlinelibrary.wiley.com/doi/10.1002/cp…

This sounds like a neat conference! isemph.org/ISEMPH-2025/ #evolution #medicine ISEMPH

An amazing pair of new papers from Brian Liau and colleagues describes a beautiful example of art-life convergence.👇

Glad to see the copy-edited version of our VRPG paper formally published in the latest issue of Genome Research ! We developed VRPG as a novel visualization framework for intuitively exploring pangenome graphs in a linear-reference-projected context. genome.cshlp.org/content/35/2/2…

Immune system one pager

I’m thrilled to share that our work on reference bias in aDNA analysis has been published in Genome Biology! This study (genomebiology.biomedcentral.com/articles/10.11…) highlights how discrepancies in small variants and other factors between T2T-CHM13 and GRCh38 impact introgression inference.

HOLY SHIT IT'S HAPPENING AI can now write genomes from scratch. Arc Institute an NVIDIA just published Evo-2, the largest AI model for biology, trained on 9.3 trillion DNA base pairs spanning the entire tree of life. it doesn’t just analyze genomes. it creates them 1/

Protein Large Language Models: A Comprehensive Survey - Protein-specific large language models (Protein LLMs) are transforming protein science by improving structure prediction, function annotation, and de novo protein design through large-scale sequence learning. - This survey

ABCFold: Easier Running and Comparison of AlphaFold 3, Boltz-1, and Chai-1 - Structural biology has seen a revolution with deep learning-based protein structure predictors like AlphaFold 3, Boltz-1, and Chai-1. However, running and comparing these models efficiently remains a

Robust Phylogenetics biorxiv.org/content/10.110… #biorxiv_evobio

Eukfinder: a pipeline to retrieve microbial eukaryote genome sequences from metagenomic data | mBio journals.asm.org/doi/10.1128/mb…

Why do some predicted protein structures fold poorly? Benchmarking AlphaFold, ESMFold, and Boltz in maize biorxiv.org/content/10.110… #biorxiv_bioinfo

New online! Antimicrobial peptides: structure, functions and translational applications nature.com/articles/s4157…