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We release our protein chatGPT, Evola! 🌟 chat-protein.com Evola comes in two versions: 10B & 80B. The 80B model has a 1.3B Saprot encoder & a 70B LLaMA3 decoder. Trained on 546 protein question-text pairs with an 150 billion word tokens! 💡🔬 biorxiv.org/content/10.110…

The general expression transformer (GET), an AI model trained on chromatin accessibility data from 213 human cell types, accurately predicts gene expression and regulatory interactions. nature.com/articles/s4158… #NBThighlight

My PhD adviser Liliana Florea has developed a Coursera course "Bioinformatics Methods for Transcrptomics". A great resource to learn cutting-edge short- and long-read RNA-seq data analysis techniques: coursera.org/learn/bioinfor…

GeNePi: a GPU-enhanced [Nextflow] Pipeline for WGS analysis biorxiv.org/content/10.110… 🧬🖥️🧪 gitlab.iit.it/Stefano.Marang…

This is like AlphaFold, but for protein localisation rather than folding It's a deep learning model that predicts a protein's subcellular compartment based on its amino acid sequence alone:

ggalign: Bridging the Grammar of Graphics and Biological Multilayered Complexity 🧬🖥️🧪 Paper: biorxiv.org/content/10.110… #Rstats Code: github.com/Yunuuuu/ggalign Docs: yunuuuu.github.io/ggalign/ Book (Quarto): yunuuuu.github.io/ggalign-book/

🚀 Introducing scGPT-spatial! 🧬🌍 A game-changing spatial-omic foundation model, built on the powerful scGPT framework with MoE (mixture of experts) and continually pretrained on a massive 30 million spatial single-cell profiles! 🧠 What’s the challenge? Spatial

scGPT-spatial: Continual Pretraining of Single-Cell Foundation Model for Spatial Transcriptomics biorxiv.org/content/10.110… 🧬🖥️🧪 github.com/bowang-lab/scG…

Join us on Monday at 12 pm E228 Beadle for Feb PSI Research Group Meeting. Presentations from Jinliang Yang Jinliang Yang and Huang Li Huang Li labs. UNL CROPS Nebraska Biochem Nebraska Agronomy and Horticulture UNL Department of Plant Pathology Nebraska Bio Sci UNLBigData UNL Ag Research

Evo 2: Genome modeling and design across all domains of life arcinstitute.org/manuscripts/Ev…

Had the honor of introducing my colleague, collaborator, and friend, Prof. Jinliang Yang, at the seminar marking his appointment as the Charles O. Gardner Endowed Professor. We are extremely fortunate to have Jinliang on the faculty here at Nebraska Agronomy and Horticulture & UNL PSI.

James Schnable Nebraska Agronomy and Horticulture UNL PSI Great work in the area of heterosis. I’ve cited him more than a few times

Plant transformation to understand soybean pathogen resistance, grain composition, make biofuel in sorghum stems, understand the economic realities of farmers and how to "keep the hype to reality ratio in check." Tom Elmo Clemente's last seminar in our department. End of an era.

In our updated TraitGym preprint, we evaluate Evo 2 on regulatory variants associated with human traits. We see marked performance gains with scale on Mendelian traits, although still a bit behind alignment-based methods. Gonzalo Benegas gokcen doi.org/10.1101/2025.0… 1/n

geneRNIB: a living benchmark for gene regulatory network inference biorxiv.org/content/10.110… 🧬🖥️🧪 github.com/openproblems-b…

Do you know? Graphs 📊 for gene 🧬 ontology and KEGG pathways (like given below) are now super easy to draw, without any learning of complex codes. Through web-based environment and for free 🆓 Tutorial: youtu.be/IW-woSE9YNk #Bioinformatics #kegg #trancriptomics

Engineering a photoactivatable A-to-I RNA base editor for gene therapy in vivo go.nature.com/3XFd81d

Interested in single cell genomics but need help getting started? Check out the full agenda for our Single Cell Genomics Day on Friday 4/25. All talks will be live-streamed (no registration required) at satijalab.org/scgd25

BioToken and BioFM – Biologically-Informed Tokenization Enables Accurate and Efficient Genomic Foundation Models biorxiv.org/content/10.110…

Sai Subhash, a PhD student at UNL, is researching nitrogen use efficiency in maize and sorghum to help plants absorb more nitrogen. His work aims to boost crop yields and make fertilizer use more efficient and sustainable.