Sébastien Lemaire

English: Stylized graphic of a human face formed by colorful horizontal bars (red, yellow, blue, and green) on a dark background. Text reads “Where It All Began” and “Every global genome effort starts with a first success,” with a white arrow pointing forward. Español: Gráfico estilizado de una doble hélice de ADN formada por barras horizontales de colores (rojo, amarillo, azul y verde) sobre un fondo oscuro. El texto dice “Where It All Began” y “Every global genome effort starts with a first success,” con una flecha blanca apuntando hacia adelante.

English: World map illuminated with glowing connection lines across continents, symbolizing global collaboration. Overlaid text explains that the Human Genome Project was the first international effort to assemble an entire genome—3 billion base pairs—and laid the foundation for initiatives like the Earth BioGenome Project to scale from one species to all life. Español: Mapa del mundo iluminado con líneas brillantes que conectan los continentes, simbolizando la colaboración global. El texto superpuesto explica que el Proyecto Genoma Humano fue el primer esfuerzo internacional para ensamblar un genoma completo—3 mil millones de pares de bases—y sentó las bases para iniciativas como el Earth BioGenome Project para escalar de una especie a toda la vida.

One genome changed everything.
The Human Genome Project showed us that:
• reference genomes are scientific infrastructure
• open data accelerates discovery
• collaboration makes scale possible
Those same principles now power a far bigger vision — understanding life across the entire Tree of Life. 🌳🧬

Developing And Internally Validating AI-Based Aging Resilience Biomarkers in Non-Human Primates https://www.biorxiv.org/content/10.64898/2026.02.25.707531v1

Specific details about PLOS Biology's mandatory code-sharing policy

In support of #OpenScience, we routinely ask authors to openly share their #research #code before publication.

We are now formalizing this practice with a mandatory #code-sharing policy and clarifying what we mean by code sharing.

May be nice to cut-out the box for reference

plos.io/47dPeOW
🧪

Covid19 origin:
1. likely from a bat
2. Restrained investigation in Wuhan’s lab, which works on bats.

Nice work! Alternative splicing afficionado is enjoying it a lot.
Thanks.

Our most recent work on the “function and evolution” of #nuclear-speckles is now online at Cell @cp-cell.bsky.social
doi.org/10.1016/j.ce...
Read the thread👇 for the highlights of our findings.

Household cat could hold the key to understanding breast cancer The first large-scale genetic study of cancer in cats has highlighted the similarity between cancer driver genes in cats and humans, possibly helping find new ways to treat cancers in both.

By analysing tumours from almost 500 pet cats, experts have found similar DNA changes driving cancer in cats and humans, possibly helping find new ways to treat both. 🐈

Read more about the first large-scale genetic study of cat cancer, and what they found, here ⬇️

www.sanger.ac.uk/news_item/ho...

142,000 participants!
The largest randomized trial of a multi-cancer early detection (MCED) test failed its primary endpoint
genomeweb.com/cancer/grail...
Had the enrollment been risk-based instead of age 50, it would likely have been very positive.

Finding one mutation that improves a protein is hard. Finding five that work together is exponentially harder.

Today in @science.org, Hsu and Konermann labs present MULTI-evolve, a lab-in-the-loop framework that does it in just one machine learning-guided round.

Announcing the publication of TAIR12: Consult the fully reannotated genome on the European Nucleotide Archive - Phoenix Bioinformatics TAIR (The Arabidopsis Information Resource), together with our nonprofit host Phoenix Bioinformatics, is pleased to announce the public release of TAIR12

🎉📣 #TAIR12, the latest reannotation of the Arabidopsis thaliana genome, is now available under accession number PRJEB100887 on ENA and NCBI!

Thank you all the volunteer researchers whose hard work has made this possible!

#plantscience #plantbiology 🧪

bit.ly/3ZHtneT

The plastic pollution crisis and unanswered questions about the increased risk of
—Cancer
jci.org/articles/vie...
—Neurodegenerative diseases
jci.org/articles/vie...

🎉 5,000+ genome assemblies sequenced!
EBP affiliates are building momentum, and we’re already looking ahead to the next genome sequencing milestone on the road to 2026.
Congratulations to everyone who worked together to make this happen. Happy holidays and a happy New Year! ✨🧬

Yann’s new startup AMI Labs will be headquartered in Paris, offices in Montreal, New York, and Singapore

Estimation and mapping of the missing heritability of human phenotypes - Nature WGS data were used from 347,630 individuals with European ancestry in the UK Biobank to obtain high-precision estimates of coding and non-coding rare variant heritability for 34 complex traits and diseases.

Nature research paper: Estimation and mapping of the missing heritability of human phenotypes

go.nature.com/3LZQsph

Check out this map of megadiverse countries around the world! 🌍
EBP-affiliated groups are actively sequencing in several of these biodiversity hotspots as we move toward 5,000 high-quality reference genomes.

👉 Follow other EBP-affiliated projects — we’re in this together! go.bsky.app/CRvXDF4

GitHub - COMBINE-lab/mim: A small, auxiliary index to massively improve parallel fastq parsing A small, auxiliary index to massively improve parallel fastq parsing - COMBINE-lab/mim

@wytamma.bsky.social : so, it took a little bit of extra time (not the flight back from the CZI meeting), but I decided to just f#&$ing do it, and the basic code to build and parse with the auxiliary fastq index is working (github.com/COMBINE-lab/...). 1/2

Left: Spatial architecture of mouse brain reconstructed using Cell2Spatial. Cell types are marked by color codes, and each dot represents an individual cell. Top right: Distribution of cell types Astro, L2/3 IT, L4 and L5 IT on mouse brain ST slice. Bottom right: Left: Epithelial cell transcriptomes from a mouse kidney single-cell atlas were mapped onto spatial spots of a normal mouse kidney using Cell2Spatial, displayed with jitter within their assigned spots. Right: The same representation, with cells colored based on their known distance to the inner medulla.

Resolution limits attempts to deconvolute spatial transcriptomics & estimate cellular composition. This study presents Cell2Spatial, which maps #scRNAseq data to #SpatialTranscriptomics spots, facilitating precise reconstruction of tissue architecture @plosbiology.org 🧪 plos.io/47MhTvl

Epigenomic and transcriptomic germ-free ageing atlas reveals sterile inflammation as an intrinsic ageing feature https://www.biorxiv.org/content/10.1101/2025.11.19.689100v1

T cell nomenclature diagram titled "T cell nomenclature: from subsets to modules" shows existing and alternative modular T cell nomenclature with examples. Text includes descriptions of T cell types and functions.

A Consensus Statement in Nature Reviews Immunology clarifies the existing subset-based nomenclature for T cells. It also proposes an alternative modular nomenclature that is designed to be brief and flexible and to avoid ambiguity and unwanted implications. go.nature.com/3Xzfoqb #immunosky 🧪

Evo2HiC: a multimodal foundation model for integrative analysis of genome sequence and architecture https://www.biorxiv.org/content/10.1101/2025.11.18.689171v1

comic strip with call and response text. who are we? CEOs what do we want? AI! AI to do what? We don't know! When do we want it? Right now!

every company in 2025

📄 BioContextAI is now slightly updated and published @natbiotech.nature.com

➡️ www.nature.com/articles/s41...

(1/N) Thrilled to share that our paper HiPoNet (High dimensional Point cloud Network) to be presented at NeurIPS 2025! HiPoNet treats an entire high-dimensional point cloud as a datapoint! It captures multi-scale geometry and topology of the cloud perform classification and regression tasks.

The new frontier in understanding human and mammalian brain development - Nature Recent studies integrating multi-omics data with cell atlases across development for brains of humans and model organisms are revealing conserved and divergent patterns of brain development at the molecular and cellular levels, and linking these to complex behavioural and neuropsychiatric phenotypes.

A Perspective in Nature discusses how recent studies integrating multi-omics data with cell atlases across development for brains of humans and model organisms are revealing conserved and divergent patterns of brain development at the molecular and cellular levels. 🧪

Congratulations to everyone involved in this fabulous #BICAN collection of papers in Nature creating a cell census of the developing human brain. These give new insights into #brain development, to help advance health and disease research.

Repair of DNA double-strand breaks leaves heritable impairment to genome function Upon DNA breakage, a genomic locus undergoes alterations in three-dimensional chromatin architecture to facilitate signaling and repair. Although cells possess mechanisms to repair damaged DNA, it is ...

𝗖𝗮𝗻 𝗰𝗲𝗹𝗹𝘀 𝗲𝘃𝗲𝗿 𝘁𝗿𝘂𝗹𝘆 𝗿𝗲𝗰𝗼𝘃𝗲𝗿 𝗳𝗿𝗼𝗺 𝗗𝗡𝗔 𝗱𝗮𝗺𝗮𝗴𝗲?Excited to share our new study “Repair of DNA double-strand breaks leaves heritable impairment to genome function”, revealing DNA repair’s hidden cost, out now @science.org tinyurl.com/5n6zw3ye. Led by @sbantele.bsky.social and Jiri Lukas.🧵👇1/n

Cell-free chemoenzymatic starch synthesis from carbon dioxide A designed chemoenzymatic cascade reaction enables cell-free synthesis of starch from carbon dioxide.

From carbon dioxide to starch—no plants required.

In Science, researchers developed a cell-free method of synthesizing starch from CO2 and hydrogen using a combination of chemical catalysts and a carefully selected set of enzymes.

Learn more: https://scim.ag/4hMvDtA #ScienceMagArchives

I’ve spent many years explaining/defending biorxiv’s “no reviews” policy.

The logic was always that opening Word and opining is a far lower barrier than doing actual research, so noise’d be >> signal and we didn’t want to make subjective quality judgements.

LLMs mean it makes even more sense 1/2

Hybridization between previously isolated lineages is main source of diversity within the population.

Hybridisation breaks species barriers in long-term coevolution of a cyanobacterial population.
buff.ly/EaJskBA