Enhanced prediction of protein functional identity through the integration of sequence and structural features biorxiv.org/cgi/content/sh… #biorxiv_bioinfo

Spacedust: de novo discovery of conserved gene clusters. Combining sensitive Foldseek structure search and conserved neighborhood detection to discover functionally-associated gene clusters in prokaryotic & viral genomes. 🚀github.com/soedinglab/spa… 📄biorxiv.org/content/10.110… 1/6🧵

ProteinAligner: A Multi-modal Pretraining Framework for Protein Foundation Models biorxiv.org/cgi/content/sh… #biorxiv_bioinfo

E(Q)AGNN-PPIS: Attention Enhanced Equivariant Graph Neural Network for Protein-Protein Interaction Site Prediction biorxiv.org/cgi/content/sh… #biorxiv_bioinfo

Excellent method—simple, fast, and acurate! With acknowledgment to Florian Plaza Oñate from the authors. MetaGenoPolis

#FeaturedProtocol this week: Learn how to predict structures of monomers, complexes, and alternative conformations with the #ColabFold protocol bit.ly/4dV56Xu ­김규리 / 학생 / 생물교육과 Sewon Lee HBKgenomics Yoshitaka Moriwaki Sergey Ovchinnikov @thesteinegger @milot_mirdita #proteinstructure

A new selective force driving metabolic gene clustering journals.asm.org/doi/full/10.11…

🚨Guillaume Brysbaert and colleagues introduce MassiveFold, an optimized and customizable version of AlphaFold that runs predictions in parallel, reducing the computing time from several months down to hours. Glycobiology IFB_Bioinformatique nature.com/articles/s4358…

mOTUs online database provides web-accessible genomic context to taxonomic profiling of microbial communities academic.oup.com/nar/advance-ar…

Microbial solutions must be deployed against climate catastrophe journals.asm.org/doi/full/10.11…

A gentle introduction to pangenomics academic.oup.com/bib/article/25…

PanTax: Strain-level taxonomic classification of metagenomic data using pangenome graphs biorxiv.org/content/10.110…

Efficient generation of protein pockets with PocketGen nature.com/articles/s4225… 🧬🖥️🧪 github.com/zaixizhang/Poc…

Decoding substrate specificity determining factors in glycosyltransferase-B enzymes - Insights from machine learning models biorxiv.org/cgi/content/sh… #biorxiv_bioinfo

Keeping it in the family: using protein family templates to rescue low confidence AlphaFold2 models academic.oup.com/bioinformatics… 🧬🖥️🧪 Nextflow: github.com/FranceCosta/AF…

New year, new assemblies! I'm excited to announce Autocycler, my new tool for consensus assembly of long-read bacterial genomes! It's the successor to Trycycler, designed to be faster and less reliant on user intervention. Check it out: github.com/rrwick/Autocyc… (1/5)

a novel tool! Repeat and haplotype aware error correction in nanopore sequencing reads with DeChat. #nanopore #haplotype doi.org/10.1038/s42003…

📢 #Joboffer ! Search experienced candidates in bioinformatics/computational biology for a #CNRS Tenure-Track position (Junior Professor Chair) for Modeling and Learning from Protein Function to Microbial Communities sfbi.fr/emplois/offre/… Université Paris-Saclay CNRS 🌍 Institut de Biologie François Jacob

Introducing GNNenrich, a new GNN-based method for pathway enrichment analysis. By incorporating gene/protein interactions, it improves biological interpretation and offers new perspectives. #Bioinformatics #CNRGH CEA Paris-Saclay academic.oup.com/bioinformatics…