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Spatial transcriptomics (ST) technologies link tissue morphology with gene expression, but remain expensive to use; furthermore, models that predict ST data from histopathology images possess considerable limitations. Here, the authors develop STimage, a deep learning probabilistic framework for ST prediction from histopathology images while prioritising robustness and interpretability.

Van der Waals materials of the MB₂T₄ family (M = transition metal or rare-earth metal, B = Bi or Sb, T = Te, Se, or S) have attracted interest for their magnetic and topological properties, but their direct synthesis into 2D form remains challenging. Here the authors report a flux-assisted, phase-controlled growth strategy to directly grow six magnetic 2D MB₂T₄ crystals.

The STAR experiment at the Relativistic Heavy Ion Collider at Brookhaven National Laboratory demonstrates evidence of spin correlations in \(\Lambda \bar{\Lambda }\) hyperon pairs inherited from virtual spin-correlated strange quark–antiquark pairs during QCD confinement.

Mitochondrial superoxide production is shown to preserve nuclear envelope integrity by controlling lipid peroxidation, with impact on nuclear and organismal ageing in C. elegans.

Artificial intelligence applied to brain magnetic resonance imaging could transform neurological care. Here the authors present BrainIAC, a foundation model that can be used across diverse clinical tasks with limited training data.

Identifying jets originating from heavy quarks plays a fundamental role in hadronic collider experiments. In this work, the ATLAS Collaboration describes and tests a transformer-based neural network architecture for jet flavour tagging based on low-level input and physics-inspired constraints.

Humanity’s Last Exam, a multi-modal benchmark at the frontier of human knowledge, is designed to be an expert-level closed-ended academic benchmark with broad subject coverage.

Tokamak walls suffer erosion from steady and bursty heat loads. Here, the authors demonstrate that optimizing 3D magnetic field and cooling gas injection can tame destructive plasma bursts while enabling cooler, safer exhaust conditions.

The role of the complement system (CS) - part of the immune system - in pancreatic ductal adenocarcinoma (PDAC) remains underexplored. Here, the authors evaluate the association of genetic variants in CS-related genes with PDAC risk, and explore their potential role in prognosis and immune infiltration.

Disruption of different components of molecular circadian clocks has varying effects on health and lifespan of model organisms. Here the authors show that loss of period extends life in drosophila melanogaster.

Dominant coactivation patterns are primarily studied in resting-state fMRI. Here, the authors study the rest of the signal, which reveals ‘caricatured’ connectomes with improved behavioral prediction.

A new artificial intelligence model, DeepSeek-R1, is introduced, demonstrating that the reasoning abilities of large language models can be incentivized through pure reinforcement learning, removing the need for human-annotated demonstrations.

Authors use a high-entropy engineering approach to produce fully amorphous BiTO films by exfoliation and annealing, creating crystalline regions, leading to flexible ceramics with dielectric properties.

Here, the authors develop an integrated mass spectrometry-based strategy that allows metabolic biomarker discovery based on nanoliter-scale biofluids in seconds. Biomarkers of diabetic cataracts are detected in trace ocular fluids with high diagnostic performance revealed to have and anti-cataract activity.

Thermal lepton pairs are ideal probes for the temperature of quark-gluon plasma. Here, the STAR Collaboration uses thermal electron-positron pair production to measure quark-gluon plasma average temperature at different stages of the evolution.

Many tumours exhibit hypoxia (low oxygen) and hypoxic tumours often respond poorly to therapy. Here, the authors quantify hypoxia in 1188 tumours from 27 cancer types, showing elevated hypoxia links to increased mutational load, directing evolutionary trajectories.

The flagship paper of the ICGC/TCGA Pan-Cancer Analysis of Whole Genomes Consortium describes the generation of the integrative analyses of 2,658 cancer whole genomes and their matching normal tissues across 38 tumour types, the structures for international data sharing and standardized analyses, and the main scientific findings from across the consortium studies.

A magnetic-spectrometer-free method for electron–proton scattering data reveals a proton charge radius 2.7 standard deviations smaller than the currently accepted value from electron–proton scattering, yet consistent with other recent experiments.

With the generation of large pan-cancer whole-exome and whole-genome sequencing projects, a question remains about how comparable these datasets are. Here, using The Cancer Genome Atlas samples analysed as part of the Pan-Cancer Analysis of Whole Genomes project, the authors explore the concordance of mutations called by whole exome sequencing and whole genome sequencing techniques.

The synthesis of crystalline 2D polymers typically relies on reversible dynamic covalent reactions, but achieving 2D polymers through irreversible carbon-carbon coupling reactions remains a formidable challenge. Here, the authors present an on-liquid surface synthesis method for constructing diyne-linked 2D polymers.

Entanglement was observed in top–antitop quark events by the ATLAS experiment produced at the Large Hadron Collider at CERN using a proton–proton collision dataset with a centre-of-mass energy of √s  = 13 TeV and an integrated luminosity of 140 fb⁻¹.

Integrative analyses of transcriptome and whole-genome sequencing data for 1,188 tumours across 27 types of cancer are used to provide a comprehensive catalogue of RNA-level alterations in cancer.

A combination of adenovirus-vectored and subunit protein intranasal vaccine enhances immune response against SARS-CoV-2 variants in animal models and humans.

The quark structure of the f₀(980) hadron is still unknown after 50 years of its discovery. Here, the CMS Collaboration reports a measurement of the elliptic flow of the f₀(980) state in proton-lead collisions at a nucleon-nucleon centre-of-mass energy of 8.16 TeV, providing strong evidence that the state is an ordinary meson.

This study introduces the Cattle Cell Atlas, a single-cell expression resource including 1,793,854 cells from 59 tissues. Integrative analyses leveraging this atlas provide insights into the biology underlying bovine monogenic and complex traits.

Through the sonochemical exfoliation of grown black phosphorus crystals, high-quality, narrow and clean black phosphorus nanoribbons with smooth edges and defined edge chirality are achieved, enabling the realization of high-performance transistors and photodetectors.

Lilies are perennial plants with ornamental flowers and large genomes. The authors assemble genomes of two Liliales species, analyze lily phylogeny, flower and stem development (bulbs in lilies, rhizomes in flame lilies), bulb growth transitions, and colchicine biosynthesis.

The authors present SVclone, a computational method for inferring the cancer cell fraction of structural variants from whole-genome sequencing data.

The primary entry route of vanilloid ligands to the vanilloid-binding site in transient receptor potential vanilloid 1 (TRPV1) is found to be a distinct and targetable hydrophobic pathway at the TRPV1–cell membrane interface rather than through direct membrane penetration.

Measurements of the proton’s generalized spin polarizabilities provide discriminating power between effective descriptions of the strong interaction at low energy.

Analysis of cancer genome sequencing data has enabled the discovery of driver mutations. Here, as part of the ICGC/TCGA Pan-Cancer Analysis of Whole Genomes (PCAWG) Consortium the authors present DriverPower, a software package that identifies coding and non-coding driver mutations within cancer whole genomes via consideration of mutational burden and functional impact evidence.

Achieving both high activity and selectivity in CH₄ photooxidation to C₂₊ hydrocarbons is challenging. This work shows that integrating photochemical and photothermal effects enhances both, enabling efficient CH₄ oxidative coupling to C₂₊ alkanes.

Photoelectrochemical etching relies on light-driven carrier migration to catalyze reactions on semiconductor surfaces. Here, the authors show that lateral photon gradients induce anomalous etching of undoped semiconductor materials.

While Bell inequalities have been violated several times—mostly in photonic systems—their violations within particle physics experiments are less explored. Here, the BESIII Collaboration showcases Bell-violating nonlocal correlations between entangled hyperon pairs.

Previously documented record values of the fusion triple product in the stellarator Wendelstein 7-X are shown to be evidence for reduced neoclassical energy transport in this optimized device.

Experiments at the Joint European Torus tokamak show improved thermal ion confinement in the presence of highly energetic ions and Alfvénic instabilities in the plasma.

Whole-genome sequencing data for 2,778 cancer samples from 2,658 unique donors across 38 cancer types is used to reconstruct the evolutionary history of cancer, revealing that driver mutations can precede diagnosis by several years to decades.

Analysis of whole-genome sequencing data from 3,023 human genomes from mainland Southeast Asia identifies high genetic heterogeneity among populations in the region and many unique small and structural variants.

Keypoint-MoSeq is an unsupervised behavior segmentation algorithm that extracts behavioral modules from keypoint tracking data acquired with diverse algorithms, as demonstrated in mice, rats and fruit flies. The extracted modules faithfully reflect human-annotated behaviors even though they are obtained in an unsupervised fashion.

The post-spinel boundary in the mantle is nonlinear, with more negative Clapeyron slopes at higher temperatures. Its temperature-dependent Clapeyron slope helps explain the diverse behavior of slabs and plumes worldwide.

Accurately predicting how much rising atmospheric carbon dioxide can increase rice production is important for managing global rice production. This study highlights that elevated carbon dioxide will boost rice yields more in middle-to-high-income countries than in low-income countries, and that this yield gap will continue to widen in the future.

In this study the authors report USP48 and BRAF are frequently mutated in USP8 wild-type corticotroph adenomas, and cause Cushing’s disease mainly through promoting the promoter activity of POMC. Inhibition of BRAF may be a promising therapeutic strategy for the treatment of patients with BRAF-mutated corticotroph adenomas.

Using multi-ancestry genome-wide association study and fine-mapping, 298 loci and 36 credible genes are identified in the aetiology of bipolar disorder.

Parity-time symmetry breaking and related non-Hermitian phenomena, such as high-order exceptional points, have attracted significant interest across various experimental platforms. Here the authors demonstrate a third-order exceptional point induced by parity-time symmetry breaking in a dissipative trapped ion.

Analyses of 2,658 whole genomes across 38 types of cancer identify the contribution of non-coding point mutations and structural variants to driving cancer.

Exploring low-cost, efficient catalysts to replace platinum is crucial for electrocatalytic hydrogen generation. Here, the authors report a termination-acidity strategy that boosts the activity of molybdenum carbides, achieving a low overpotential and sustaining hydrogen generation for over 200 h.

Whole-genome sequencing data from more than 2,500 cancers of 38 tumour types reveal 16 signatures that can be used to classify somatic structural variants, highlighting the diversity of genomic rearrangements in cancer.

An analysis of 2,954 genomes from 38 cancer subtypes identified 19,166 retrotransposition events in 35% of samples. Aberrant LINE-1 retrotranspositions can lead to the deletion of tumor-suppressor genes as well as the amplification of oncogenes.

Cancers evolve as they progress under differing selective pressures. Here, as part of the ICGC/TCGA Pan-Cancer Analysis of Whole Genomes (PCAWG) Consortium, the authors present the method TrackSig the estimates evolutionary trajectories of somatic mutational processes from single bulk tumour data.