RT&T-AMP-MERFISH enables whole-transcriptome-scale, isoform-resolved spatial imaging of single cells in intact tissues and reveals how gene programs and transcript isoform usage vary across cell types...

The performance of single-cell foundation models is dependent on many factors. This study assesses the effect of the pretraining dataset’s size and diversity, revealing potential challenges in pursuin...

Schaefer et al. introduce a new bioinformatic toolkit for pooled single-cell sequencing experiments, which increases throughput and mitigates batch effects and biases. This includes a method for ambie...

From pregnancy until lactation, eosinophils accumulate in the small intestine where they regulate goblet cell fate and enhance innate defences against enteric pathogens.

Nature Protocols, Published online: 23 April 2026; doi:10.1038/s41596-026-01364-8Geneformer is a foundational model that enables mapping interactions between genes within networks. The trained model can then be applied to predict the effect of gene perturbations on cell states in settings with limited data.

Peptides are sequenced by converting each amino acid into amplifiable DNA barcodes.

Nature - The United Kingdom and Brazil have issued warnings about a possible link between GLP-1 weight-loss drugs and pancreatic inflammation, but the connection is murky.

Engineered pluripotent stem cells form somatic and germ cells that mimic a functional testis

An optical archival storage technology based on femtosecond laser direct writing in glass addresses the practical demands of archival storage.

Trimodal single-cell analysis reveals gene-regulatory architecture in complex tissues.

The SpatialEx(+) framework uses histology to generate and integrate complementary spatial multi-omics data across samples.

This work introduces Deep-STARmap and Deep-RIBOmap, imaging-based sequencing platforms designed to profile transcriptional and translational activity in thick tissue blocks.

A new strategy that uses prime editing to convert an endogenous tRNA into a suppressor tRNA shows therapeutic potential for multiple genetic diseases that are caused by premature stop codons.

u-Segment3D is a universal framework that translates and enhances 2D instance segmentations to a 3D consensus instance segmentation without training data. It performs well across diverse datasets, inc...

A cross-species single-cell atlas highlights a core subset of cell-type foundational genes associated with major vascular plant cell types, enabling the identification of hidden cell types and the dev...

A comprehensive single-nucleus RNA-seq atlas of >367,000 nuclei from male and female Aedes aegypti mosquitoes reveals sexual dimorphism in sensory systems and brain cell types and widespread co-expres...

A combination of whole-genome NanoSeq with deep whole-exome and targeted NanoSeq is used to accurately characterize mutation rates and genes under positive selection in sperm cells.

Haploid embryonic stem cells for cattle and sheep are produced, opening new reproductive possibilities.

RAEFISH delivers whole-transcriptome (>20,000 genes) imaging at single-molecule resolution in cells and tissues and enables direct gRNA detection for high-content, image-based CRISPR screens.

The creator of the NumPy and SciPy libraries reflects on their supporting role in the story of Python, now the subject of a documentary.

Nature Methods - Translon: a single term for translated regions

A prototype of bifocal eyeglasses uses liquid crystals and electric fields to switch between modes that aid in nearby and distance vision

Stereo-seq V2 facilitates single-cell-resolution spatial RNA mapping in FFPE samples through random primer capture, uncovering ncRNAs, host-pathogen transcriptome profiling, and spatial immune reperto...

PepMLM designs peptide binders against diverse targets using masked language modeling.

This work presents MAPIT-seq, an antibody-guided RNA editing method that enables co-profiling of RBP-RNA interactions and gene expression at single-cell resolution and in tissue contexts.

Microbiome analyses of living trees show that a single tree can host approximately one trillion bacteria, with microbial communities distinctly partitioned between heartwood and sapwood and with minimal similarity to other tissues or ecosystem components.

Mitochondria fulfill central functions in metabolism and energy supply. They express their own genome, which encodes key subunits of the oxidative phosphorylation system. However, the central mechanis...

Using sequencing and haplotype-resolved assembly of 65 diverse human genomes, complex regions including the major histocompatibility complex and centromeres are analysed.

The relationship between pathogenic germline variation, clonal hematopoiesis (CH) and risk of hematologic malignancy is explored in 731,835 individuals across 6 cohorts. Carriers of variants in certai...

TopoVelo infers cell differentiation stages and rate parameters of gene expression using spatially coupled differential equations.

Single-cell and spatial transcriptomics analysis of stricturing Crohn’s disease highlights cellular heterogeneity in fibrotic tissue and identifies neighborhoods of fibroblasts and immune cells contri...

First came AlphaFold. Now comes AlphaGenome for DNA.

Tool aims to solve the mystery of non-coding sequences — but is still in its infancy.

Single-cell RNA sequencing has revolutionized cellular heterogeneity research, but analyzing the abundance of unannotated public datasets remains challenging. We present scExtract, a framework leverag...

Human pluripotent stem cell-derived kidney organoids replicate embryonic nephrogenesis in a 3D-culture system. Recent advances suggest that refining the culture environment to replicate spatiotemporal...