The bottom line: Benchmarking—much like success in life—is not a zero-sum game.

It’s about finding the right tool for the right job, not finding the "one tool to rule them all." ⚔️

What’s your "litmus test" for a trustworthy benchmark?

#Bioinformatics #OpenScience #DataScience #CompBio

Promotional graphic showing a section of figure 5 from the white paper of the cysteine-481 sulfur link to Ibrutinib.

Covalent ligand docking is faster, easier, and more accurate in GOLD. ✔️

Find out what's changed and see example results in this new white paper.

Download it here: ccdc-info.com/4re9FCT

#DrugDiscovery #Pharma #CompChemSky #CompBio

Molecular clock dating using complex mixture models: applied to ancient symbionts Abstract. Molecular clocks are a fundamental technique in evolutionary biology for establishing the timing and tempo of organismal divergence. However, cur

@sishuowang.bsky.social & Meade introduce phyloHessian, using complex mixture substitution models in molecular dating. Empirical analysis of ancient symbiont lineages leads to a revised understanding of their host association origins.

🔗 doi.org/10.1093/molbev/msag039

#evobio #molbio #compbio

‘Virtual cell’ captures most-basic process of life: bacterial division Researchers simulated nearly every molecule in a bacterial cell — and then watched the cell grow and reproduce.

#compbio Good read: Virtual cell’ captures most-basic process of life: bacterial division www.nature.com/articles/d41...

Biostatistics & Informatics Department Seminar Series: Featuring Dr. Jingyi Jessica Li YouTube video by Colorado School of Public Health (ColoradoSPH)

Check out recent talk @jsb-ucla.bsky.social gave at Colorado School of Public Health!

#Bioinformatics #FDR #Biostatistics #CompBio #HighThroughputBiology

📢 𝐂𝐚𝐥𝐥 𝐟𝐨𝐫 𝐏𝐚𝐩𝐞𝐫𝐬: 𝐂𝐮𝐫𝐫𝐞𝐧𝐭 𝐁𝐢𝐨𝐢𝐧𝐟𝐨𝐫𝐦𝐚𝐭𝐢𝐜𝐬 🧪

Publish in our Scopus-indexed journal! We offer high visibility and rigorous peer review for the global computational biology community. 🧬

🔗 Submit today: https://bit.ly/4s0XXg1

#Bioinformatics #CompBio #Genomics #DataScience #ScienceSky #AcademicSky

Processing power Meet the LJI scientists changing medical research through artificial intelligence

Forget ChatGPT and Gemini.

“We don’t have that kind of error tolerance."

Here's how LJI scientists are building new AI tools to advance medical research: mag.lji.org/fall2025/pro...

#DataScience #CompBio #AI #ChatGPT

Green graphic with yellow and white text reads, "Vascular Contributions to Cognitive Impairment and Dementia (VCID) | 3 Reasons to attend | April 28 – May 1, 2026 | Washington University in St. Louis."

Green graphic with yellow and white text reads, "#1 Opportunities to present talks or posters and develop grantsmanship through expert guidance and real-time feedback."

Green graphic with yellow and white text reads, "#2 Engaging seminars cover molecular approaches, mouse models of ADRD and computational methods, highlighting current research and future directions."

Green graphic with yellow and white text reads, "#3 Travel awards available for trainees to support skill development and career momentum. Apply during registration!"

⏰ Submit an abstract by April 3 to present a talk or poster!

@jacksonlab.bsky.social's workshop brings together researchers in #VascularBiology and #Neurodegeneration to advance work in #AlzheimersDisease and related dementias.

🔜 Register: www.jax.org/education-an...

#NeuroSkyence #CompBio #ADRD

RECUR: identifying recurrent amino acid substitutions from multiple sequence alignments Abstract. Identifying recurrent changes in biological sequences is important to multiple aspects of biological research—from understanding the molecular ba

Robbins, Liu & Kelly present RECUR, a method for identifying recurrent amino acid substitutions from multiple sequence alignments that is fast, easy to use, and scalable to thousands of sequences.

🔗 doi.org/10.1093/molbev/msag036

#evobio #molbio #compbio

TreeProfiler: large-scale metadata profiling along gene and species trees Abstract. Profiling biological traits along gene or species tree topologies is a well-established approach in comparative genomics, widely employed to infe

@dengziqi1991.bsky.social et al. present TreeProfiler, a tool for automated annotation and interactive exploration of hundreds of features along large gene and species trees, with seamless summarization of mapped traits at internal nodes.

🔗 doi.org/10.1093/molb...

#evobio #molbio #compbio

#compbio #metagenomics There was a popular-press paper that indicated NCD might be faster than deep neural nets for classification. In metagenomics, w/ lots of comparisons, they're NOT. And they were only better in superkingdom classification - clear kmer patterns. peerj.com/articles/206...

#compbio #bioinformatics

Inference and Visualization of Complex Genotype–Phenotype Maps Abstract. Understanding how biological sequences give rise to observable traits, that is, how genotype maps to phenotype, is a central goal in biology. Yet

Martí-Gómez et al. developed gpmap-tools, integrating models for inference, phenotypic imputation, and error estimation from multiplex assays of variant effect data or natural sequences in the presence of genetic interactions.

🔗 doi.org/10.1093/molbev/msag023

#evobio #molbio #compbio

📣 DEADLINE UPDATE: Good news! We’ve extended the Gen² paper submission deadline to:
📅 Feb 8, AoE

We look forward to hearing about your latest research in GenAI in Genomics at @iclr-conf.bsky.social !

🔗 genai-in-genomics.github.io/call_for_pap...

#ICLR2026 #GenAI #CompBio #BioML #Genomics 🧬🧪

Assessing Ancient DNA Sampling Strategies for Natural Selection Inference in Humans Using Allele Frequency Time Series Data Abstract. The increased availability of genomic data from ancient humans allows estimating the strength of natural selection at a given locus using time se

@anchieri.bsky.social @cegamorim.bsky.social et al. benchmark the inference of selection with aDNA-like time series datasets, showing that ApproxWF can estimate selection with datasets of ∼100 individuals when selection is strong.

🔗 doi.org/10.1093/gbe/evaf234

#genome #evolution #compbio

MBE | PharaohFUN: phylogenomic analysis for plant protein history and function elucidation PharaohFUN incorporates a homogeneous representative sampling of key species in Viridiplantae, bridging clades that have traditionally been studied separately, thus establishing a comprehensive evolutionary framework to draw conclusions about sequence evolution and function.

@marcosramos99.bsky.social @franromerocampero.bsky.social et al. present PharaohFUN, a web application designed for evolutionary and functional analysis of protein sequences in photosynthetic eukaryotes, leveraging orthology relationships.

🔗 doi.org/10.1093/molbev/msag011

#evobio #molbio #compbio

Arc AIxBio Fellows Program for Undergrads | Arc Institute Arc Institute is a independent nonprofit research organization headquartered in Palo Alto, California.

@arcinstitute.org just announced an AI & Bio fellowship for undergrads!

I'm building a team of 2–3 to apply. My interests are in AI for oncology or genomics. Looking for teammates with deep learning/modeling experience.

If you are interested, send me a DM or reply below.

#SciSky #AIxBio #CompBio

🧬 2026 Internship: Marioni Group @genentech.bsky.social Seeking PhD intern for Deep Learning on large-scale genetic screens (Perturb-seq/Optical).
Focus: ML for single-cell + imaging to decode phenotypes.
📍 SSF (On-site) | 12-wk paid
⚠️ Apply via portal only: 🔗 bit.ly/45P7TQB
#CompBio #AI #Genetics

About me.

I am a first-class honors graduate of Biomedical Laboratory Science, from the University of Ibadan. I specialized in Virology.

My interests are in #AI/ML, #Virology, #Bioinformatics, #CompBio, #Proteins, #RNA and #Immunology. I am currently searching for funded MSc or PhD position.

Structome-AlignViewer: On Confidence Assessment in Structure-Aware Alignments Abstract. Protein structure-based comparison provides a framework for uncovering deep evolutionary relationships that can escape conventional sequence-base

@proteinmechanic.bsky.social et al. present the web-based Structome-AlignViewer for evaluating structure-aware alignments through spatial mapping of alignment columns to protein structures, and quantitative confidence scoring.

🔗 doi.org/10.1093/gbe/evag004

#genome #evolution #compbio

MBE | MicrobeTrace 2.0: the enhanced visualization multitool for molecular epidemiology and bioinformatics

Shankar et al. present the updated MicrobeTrace 2.0 as a next-generation, interoperable tool for genomic epidemiology and data-driven public health response.

🔗 doi.org/10.1093/molbev/msaf334

#evobio #molbio #compbio

Three new Computational Biology Scholars join the Stowers Institute… Scholars perform cutting-edge, collaborative, and multidisciplinary computational science aimed at solving fundamental biological questions.

Interested in turning biological data into #discovery?

The #CompBio Scholars Program offers hands-on #research, mentorship, and real-world impact for early-career computational biologists.

Meet the 2025 scholars + apply now: www.stowers.org/gradschool/n...

As teachers we know that math is inaccessible for students, but we don't know exactly why.

Our study aims to understand how student's math confidence impacts their learning performance.

Learn more & participate: peischllab.github.io/MEEW.html

#mathbio #compbio #evolution #ecology

The #CompBio Scholars Program provides a valuable, career-enhancing research and mentoring opportunity for early-career computational biologists and bioinformaticians. Don't miss your chance to apply⬇️

Curious what it's like to be a #CompBio Scholar at the Institute? Find out in this Q&A! ⬇️

A Q&A with a Stowers Computational Biology Scholar  Learn more about Inaugural Scholar Alejandro Diaz de la Vega Gonzalez and what led him to pursue a career in computational biology

Our #CompBio Scholars Program pairs early-career scientists with Stowers Investigators & Tech Center experts. For inaugural Scholar Alejandro Diaz de la Vega Gonzalez, that meant hands-on training, mentorship.

Learn more + apply ➡️ bit.ly/3KgFYBn

Join the AITHYRA-CeMM PhD Open Day tomorrow if you want to join us pushing the boundaries of spatial biology and AI.

cemm.at/phd-open-day...

#PhD #AcademicSky #CompBio #Bioinformatics #MachineLearning

Calling all early-career computational biologists! Check out the #StowersGrad #CompBio Scholars program and apply by the February 9th deadline ⬇️

Computational Biology Scholars The mission of The Graduate School of the Stowers Institute for Medical Research is to prepare a superb cadre of predoctoral researchers from around the…

🚨 If you’re an early-career computational biologist or #bioinformatician ready to grow in a collaborative, world-class #research institute — now is the time to apply to our #CompBio Scholars program.

🔗Learn more + apply: bit.ly/3T0dYCy

Not Just Ne Ne-More: New Applications for SMC from Ecology to Phylogenies Abstract. Genomes contain the mutational footprint of an organism’s evolutionary history, shaped by diverse forces including ecological factors, selective

In a new GBE Review, @david-peede.bsky.social et al. overview the SMC model and extensions, discuss examples of discoveries made with the help of SMC-based inference, and comment on the assumptions, benefits, and drawbacks of various methods.

🔗 doi.org/10.1093/gbe/...

#genome #evolution #compbio