TBAS (Trio-barcoded Oxford Nanopore Adaptive Sequencing) enables long-read analysis of an affected child and both parents on a single flow cell.
#bioinformatics #genomics #compbio
#bioinformatics #genomics #compbio
Cost-efficient long-read trio-barcoded adaptive sequencing improves rare disease diagnosis.
Unsolved rare diseases (trio analysis) · Nat Commun 2026
www.genox-veille.fr
November 3, 2026 at 1:00 PM
TBAS (Trio-barcoded Oxford Nanopore Adaptive Sequencing) enables long-read analysis of an affected child and both parents on a single flow cell.
#bioinformatics #genomics #compbio
#bioinformatics #genomics #compbio
New in Nature: Pinal (Westlake University) designs protein sequences from plain-language descriptions. 16B parameters, trained on 1.7B protein–text pairs. A Pinal-designed H-protein raised product titre 1.7× vs the native E. coli one. Code Apache-2.0. toolome.bio #ProteinDesign #CompBio
October 30, 2026 at 3:20 PM
New in Nature: Pinal (Westlake University) designs protein sequences from plain-language descriptions. 16B parameters, trained on 1.7B protein–text pairs. A Pinal-designed H-protein raised product titre 1.7× vs the native E. coli one. Code Apache-2.0. toolome.bio #ProteinDesign #CompBio
Single-cell AI models transfer across 1.2bn years of evolution. They still struggle to beat PCA. Both are true. The evidence:
#AIinBiotech #SingleCell #CompBio
artificialscience.org/2026/11/ai-m...
#AIinBiotech #SingleCell #CompBio
artificialscience.org/2026/11/ai-m...
AI Models Cells Across a Billion Years. Can They Beat Plain PCA? — Artificial Science
A preprint posted last week shows single-cell foundation models transfer across a billion years of evolution. The peer-reviewed benchmark record is far less flattering. Here is what the evidence actua...
artificialscience.org
November 3, 2026 at 5:26 AM
Single-cell AI models transfer across 1.2bn years of evolution. They still struggle to beat PCA. Both are true. The evidence:
#AIinBiotech #SingleCell #CompBio
artificialscience.org/2026/11/ai-m...
#AIinBiotech #SingleCell #CompBio
artificialscience.org/2026/11/ai-m...
New: SpliceAI2 (Illumina) predicts splice-site usage, junctions and full-length transcripts from DNA sequence. Trained on 314,745 RNA-seq samples across 10 species plus 330 long-read samples. Weights for academic & non-commercial research use. toolome.bio #Genomics #CompBio
October 29, 2026 at 3:18 PM
New: SpliceAI2 (Illumina) predicts splice-site usage, junctions and full-length transcripts from DNA sequence. Trained on 314,745 RNA-seq samples across 10 species plus 330 long-read samples. Weights for academic & non-commercial research use. toolome.bio #Genomics #CompBio
One minute on Evo 2 (Arc Institute + collaborators): a DNA language model trained on 9.3T bases across all domains of life, StripedHyena 2 architecture, 1M-base context at single-nucleotide resolution, zero-shot variant effect scoring. Apache-2.0. toolome.bio #Genomics #CompBio
October 28, 2026 at 3:22 PM
One minute on Evo 2 (Arc Institute + collaborators): a DNA language model trained on 9.3T bases across all domains of life, StripedHyena 2 architecture, 1M-base context at single-nucleotide resolution, zero-shot variant effect scoring. Apache-2.0. toolome.bio #Genomics #CompBio
Tool Duel: AlphaFold 2 vs ESMFold. AF2 searches for related sequences and reads the alignment with a 48-block Evoformer; ESMFold swaps the search for the ESM-2 language model. Both end in AF2's structure module design. By DeepMind & Meta AI; details at toolome.bio #AlphaFold #CompBio
October 26, 2026 at 3:22 PM
Tool Duel: AlphaFold 2 vs ESMFold. AF2 searches for related sequences and reads the alignment with a 48-block Evoformer; ESMFold swaps the search for the ESM-2 language model. Both end in AF2's structure module design. By DeepMind & Meta AI; details at toolome.bio #AlphaFold #CompBio
Tool Duel: Protenix vs Chai-1. Both rebuild AlphaFold 3. Protenix (ByteDance) keeps MSA + templates and opens training code and data pipelines; Chai-1 (Chai Discovery) adds a 3B protein LM track and restraints. One contact: 35% → 57%. toolome.bio #CompBio #AlphaFold
October 27, 2026 at 3:26 PM
Tool Duel: Protenix vs Chai-1. Both rebuild AlphaFold 3. Protenix (ByteDance) keeps MSA + templates and opens training code and data pipelines; Chai-1 (Chai Discovery) adds a 3B protein LM track and restraints. One contact: 35% → 57%. toolome.bio #CompBio #AlphaFold
AlphaFold 3, piece by piece: inputs and search, a small MSA module, a 48-block Pairformer, then diffusion that denoises raw atom coordinates (no frames, no torsion angles). A confidence head ranks 25 samples. By Google DeepMind & Isomorphic Labs; details at toolome.bio #AlphaFold #CompBio
October 25, 2026 at 3:18 PM
AlphaFold 3, piece by piece: inputs and search, a small MSA module, a 48-block Pairformer, then diffusion that denoises raw atom coordinates (no frames, no torsion angles). A confidence head ranks 25 samples. By Google DeepMind & Isomorphic Labs; details at toolome.bio #AlphaFold #CompBio
Tool Duel: RFdiffusion2 scaffolds enzyme active sites. RFdiffusion3 does that too, plus binders to DNA, proteins and small molecules, all-atom, and is ~10x faster. BSD-3-Clause, Science 2026. Toolome didn't build either; details at toolome.bio/tools/rfdiffusion3/ #ProteinDesign #CompBio
October 24, 2026 at 3:18 PM
Tool Duel: RFdiffusion2 scaffolds enzyme active sites. RFdiffusion3 does that too, plus binders to DNA, proteins and small molecules, all-atom, and is ~10x faster. BSD-3-Clause, Science 2026. Toolome didn't build either; details at toolome.bio/tools/rfdiffusion3/ #ProteinDesign #CompBio
Calling all #ECRs: If you have a new paper/preprint in #devbio, #compbio, #cellbio, #mechanobiology, let us know. We want to help promote your work to a wider community, and facilitate new collaboration and networking opportunities.
If you want to promote a workshop/conference, let us know too! 🤩
If you want to promote a workshop/conference, let us know too! 🤩
October 21, 2026 at 7:50 PM
Calling all #ECRs: If you have a new paper/preprint in #devbio, #compbio, #cellbio, #mechanobiology, let us know. We want to help promote your work to a wider community, and facilitate new collaboration and networking opportunities.
If you want to promote a workshop/conference, let us know too! 🤩
If you want to promote a workshop/conference, let us know too! 🤩
🧬 Nordic CompBio Finland 2026 is here! 🇫🇮
Join us in Helsinki for a day exploring single-cell & multi-omics, systems pharmacology & toxicology, and precision medicine.
☕ Scientific sessions start at 10:00 EEST!
#NordicCompBio #Bioinformatics
Join us in Helsinki for a day exploring single-cell & multi-omics, systems pharmacology & toxicology, and precision medicine.
☕ Scientific sessions start at 10:00 EEST!
#NordicCompBio #Bioinformatics
October 23, 2026 at 6:22 AM
🧬 Nordic CompBio Finland 2026 is here! 🇫🇮
Join us in Helsinki for a day exploring single-cell & multi-omics, systems pharmacology & toxicology, and precision medicine.
☕ Scientific sessions start at 10:00 EEST!
#NordicCompBio #Bioinformatics
Join us in Helsinki for a day exploring single-cell & multi-omics, systems pharmacology & toxicology, and precision medicine.
☕ Scientific sessions start at 10:00 EEST!
#NordicCompBio #Bioinformatics
The authors introduce HitSV, a structural variant (SV) detection tool that couples repetitiveness- and signature-density-aware breakpoint recognition with haplotype-resolved local assembly, enabling base-resolution SV reconstruction and genotyping across sequenci…
#bioinformatics #genomics #compbio
#bioinformatics #genomics #compbio
Structural variant detection across sequencing technologies.
Structural variant detection · Nat Biotechnol 2026
www.genox-veille.fr
October 23, 2026 at 1:00 PM
The authors introduce HitSV, a structural variant (SV) detection tool that couples repetitiveness- and signature-density-aware breakpoint recognition with haplotype-resolved local assembly, enabling base-resolution SV reconstruction and genotyping across sequenci…
#bioinformatics #genomics #compbio
#bioinformatics #genomics #compbio
AI biology's bottleneck isn't models, it's data. Biohub's Virtual Biology Initiative totals $1.8B to measure how cells respond to more conditions than ever studied, with DOE, NIH, Google DeepMind, Isomorphic, and Meta. The datasets go public after embargo periods. #MachineLearning #CompBio
Zuckerberg's $500M AI Cell Initiative Explained
Mark Zuckerberg and Priscilla Chan's Biohub launches a $500M Virtual Biology Initiative using AI to build predictive human cell models and fight all diseases.
theaiworld.org
October 20, 2026 at 11:28 AM
AI biology's bottleneck isn't models, it's data. Biohub's Virtual Biology Initiative totals $1.8B to measure how cells respond to more conditions than ever studied, with DOE, NIH, Google DeepMind, Isomorphic, and Meta. The datasets go public after embargo periods. #MachineLearning #CompBio
In England, WGS is offered to children with suspected cancer, but results are returned after several weeks whereas clinical decisions are often needed within days.
#bioinformatics #genomics #compbio
#bioinformatics #genomics #compbio
Rapid Whole Genome Sequencing Enhances Pediatric Cancer Diagnosis.
Paediatric cancers (suspected or confirmed) · Nat Commun 2026
www.genox-veille.fr
October 16, 2026 at 1:02 PM
In England, WGS is offered to children with suspected cancer, but results are returned after several weeks whereas clinical decisions are often needed within days.
#bioinformatics #genomics #compbio
#bioinformatics #genomics #compbio
Weekly reads 5/10/26:
From meta-interactions to cellular memory: how cells talk, learn and adapt
behindthebioinformatics.substack.com/p/weekly-rea...
#SingleCell #SpatialBiology #CancerResearch #CompBio
From meta-interactions to cellular memory: how cells talk, learn and adapt
behindthebioinformatics.substack.com/p/weekly-rea...
#SingleCell #SpatialBiology #CancerResearch #CompBio
Weekly reads 5/10/26
From meta-interactions to cellular memory: how cells talk, learn and adapt
behindthebioinformatics.substack.com
October 12, 2026 at 9:53 AM
Weekly reads 5/10/26:
From meta-interactions to cellular memory: how cells talk, learn and adapt
behindthebioinformatics.substack.com/p/weekly-rea...
#SingleCell #SpatialBiology #CancerResearch #CompBio
From meta-interactions to cellular memory: how cells talk, learn and adapt
behindthebioinformatics.substack.com/p/weekly-rea...
#SingleCell #SpatialBiology #CancerResearch #CompBio
I'm a botanist by education and a data scientist by trade. I really need am expert in #biology #compbio #biophysics or #medicine to explain to me how the fuck we are experimenting with human brain organiods and there is no risk that we're creating small phil k dick slave consciousness.
October 11, 2026 at 10:00 PM
I'm a botanist by education and a data scientist by trade. I really need am expert in #biology #compbio #biophysics or #medicine to explain to me how the fuck we are experimenting with human brain organiods and there is no risk that we're creating small phil k dick slave consciousness.
Reflecting on the recent #AI maths dump. Companies can wage asymmetrical warfare on any research topic using n×24/7 AI agents. Should #bioinformatics #BioInfo and #CompBio folks embrace or improvise, adapt and overcome?
My play: Enter the #MoistLab
#SciSky 🧪
bananabenana.github.io/compu-micro-...
My play: Enter the #MoistLab
#SciSky 🧪
bananabenana.github.io/compu-micro-...
AI firms conduct asymmetrical warfare on science and the adjustments to be considered for bioinformatics and computational biology research
The OpenAI maths dump and what AI news is worth paying attention to I’ve been reflecting on the recent OpenAI maths dump [1] and Google DeepMind’s AlphaProof [2] from the perspective of a research mic...
bananabenana.github.io
October 11, 2026 at 2:01 PM
Reflecting on the recent #AI maths dump. Companies can wage asymmetrical warfare on any research topic using n×24/7 AI agents. Should #bioinformatics #BioInfo and #CompBio folks embrace or improvise, adapt and overcome?
My play: Enter the #MoistLab
#SciSky 🧪
bananabenana.github.io/compu-micro-...
My play: Enter the #MoistLab
#SciSky 🧪
bananabenana.github.io/compu-micro-...
@rom12relle.bsky.social @johnlees.bacpop.org & Chindelevitch present kamino, a reference- and alignment-free method that rapidly builds amino acid phylogenomic alignments directly from proteomes.
🔗 doi.org/10.1093/molb...
#societyjournal #compbio
🔗 doi.org/10.1093/molb...
#societyjournal #compbio
kamino: fast proteome-wide variant calling for amino acid phylogenomics
Abstract. Amino acid-based phylogenetics usually relies on first clustering and aligning orthologous proteins. This approach is powerful but computationall
doi.org
October 9, 2026 at 3:21 PM
@rom12relle.bsky.social @johnlees.bacpop.org & Chindelevitch present kamino, a reference- and alignment-free method that rapidly builds amino acid phylogenomic alignments directly from proteomes.
🔗 doi.org/10.1093/molb...
#societyjournal #compbio
🔗 doi.org/10.1093/molb...
#societyjournal #compbio
Two PhD positions open in my group @ethz.ch (Basel):
Digital twins of embryonic development.
🧬 Mathematical modelling of biology jobs.ethz.ch/job/view/JOP...
💻 Computing: parameter estimation (incl. PINNs), simulation environments jobs.ethz.ch/job/view/JOP...
#PhD #CompBio #Embryology
Digital twins of embryonic development.
🧬 Mathematical modelling of biology jobs.ethz.ch/job/view/JOP...
💻 Computing: parameter estimation (incl. PINNs), simulation environments jobs.ethz.ch/job/view/JOP...
#PhD #CompBio #Embryology
October 5, 2026 at 12:34 PM
Two PhD positions open in my group @ethz.ch (Basel):
Digital twins of embryonic development.
🧬 Mathematical modelling of biology jobs.ethz.ch/job/view/JOP...
💻 Computing: parameter estimation (incl. PINNs), simulation environments jobs.ethz.ch/job/view/JOP...
#PhD #CompBio #Embryology
Digital twins of embryonic development.
🧬 Mathematical modelling of biology jobs.ethz.ch/job/view/JOP...
💻 Computing: parameter estimation (incl. PINNs), simulation environments jobs.ethz.ch/job/view/JOP...
#PhD #CompBio #Embryology
We have developed Ciclopes, a biology-informed deep-learning framework that uses an autoencoder to reconstruct periodic gene expression dynamics and estimates phase-dependent transcription and degradation rates #CompBio, #DeepLearning, #MechansticModelling, #scRNAseq.
September 24, 2026 at 8:17 AM
We have developed Ciclopes, a biology-informed deep-learning framework that uses an autoencoder to reconstruct periodic gene expression dynamics and estimates phase-dependent transcription and degradation rates #CompBio, #DeepLearning, #MechansticModelling, #scRNAseq.
From individual thresholds to collective hysteresis: a mechanistic model of the dawn chorus: buff.ly/gtVWLSq #JRSocInterface #CompBio
September 23, 2026 at 2:01 PM
From individual thresholds to collective hysteresis: a mechanistic model of the dawn chorus: buff.ly/gtVWLSq #JRSocInterface #CompBio
Paired germline and tumor sequencing data from 1,110 colorectal or endometrial tumors across 1,073 patients were analysed to quantify how mismatch repair-deficient mutational signatures can be integrated into germline variant interpretation.
#bioinformatics #genomics #compbio
#bioinformatics #genomics #compbio
Bayesian Integration of Tumor Mutational Signatures and Somatic Features Refines Pathogenicity Assessment of Germline Mi
Lynch syndrome — germline variant classification · Hum Mutat 2026
www.genox-veille.fr
September 19, 2026 at 1:00 PM
Paired germline and tumor sequencing data from 1,110 colorectal or endometrial tumors across 1,073 patients were analysed to quantify how mismatch repair-deficient mutational signatures can be integrated into germline variant interpretation.
#bioinformatics #genomics #compbio
#bioinformatics #genomics #compbio
I'm hiring a bioinformatician! Review of applications starts October 1 with a start date as soon as possible. 🧪 #Genomics #popGen #CompBio northeastern.wd1.myworkdayjobs.com/careers/job/...
Bioinformatician - Lotterhos Lab
About the Opportunity About the Center for Marine Ecological Genomics The successful candidate will be based at the Lotterhos Lab and the Center for Marine Ecological Genomics at Northeastern Marine S...
northeastern.wd1.myworkdayjobs.com
September 15, 2026 at 4:13 PM
I'm hiring a bioinformatician! Review of applications starts October 1 with a start date as soon as possible. 🧪 #Genomics #popGen #CompBio northeastern.wd1.myworkdayjobs.com/careers/job/...
Our 2026 LEAD Day scientific panel explores how AI, multi-omics, and increasingly data-rich approaches are changing the way we understand and treat #autoimmune and chronic disease.
#Immunology #Autoimmunity #Health #Medicine #DataScience #CompBio #AI
#Immunology #Autoimmunity #Health #Medicine #DataScience #CompBio #AI
September 15, 2026 at 8:49 PM
Our 2026 LEAD Day scientific panel explores how AI, multi-omics, and increasingly data-rich approaches are changing the way we understand and treat #autoimmune and chronic disease.
#Immunology #Autoimmunity #Health #Medicine #DataScience #CompBio #AI
#Immunology #Autoimmunity #Health #Medicine #DataScience #CompBio #AI