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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.

Generation of orbital currents in a non-magnetic material can be useful to build efficient orbitronic devices. Now, the interplay of chiral phonons and electrons is shown to produce orbital currents in α-quartz.

By combining satellite observations with ground-based data and expert validation, this analysis demonstrates considerable misestimation of grassland extent and thereby carbon stock estimates in previous global assessments based on remote sensing.

Two main acceleration mechanisms in the auroral acceleration region are electric potential and Alfvénic acceleration but associated energy dynamics are not completely resolved. Here, the authors show that Alfvén waves power the Earth’s auroral arc through a static potential drop in the auroral acceleration region.

Sequences of 137 ancient and 502 modern human genomes illuminate the population history of the Eurasian steppes after the Bronze Age and document the replacement of Indo-European speakers of West Eurasian ancestry by Turkic-speaking groups of East Asian ancestry.

Despite recent advances with trappedion-based platforms, achieving quantum networks with link efficiency greater than unity on metropolitan scales is still a challenge. Here, the authors demonstrate a multiplexed quantum network generating heralded entanglement at a rate faster than local decoherence.

Here authors show loss of AKAP11, a strong genetic risk factor for bipolar disorder and schizophrenia, disrupts PKA proteostasis and signaling, leading to widespread transcriptomic alterations across the brain, particularly in striatal neurons, as well as altered behavior.

The authors find that TDP-43 loss of function—the pathology defining the neurodegenerative conditions ALS and FTD—induces novel mRNA polyadenylation events, which have different effects, including an increase in RNA stability, leading to higher protein levels.

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

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.

Soil nitrogen isotopic composition is used to drive the IsoTONE model, which is constrained with measurements of tropospheric nitrous oxide isotopic composition. The model results reveal causes of rising mean global nitrous oxide emission factor.

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.

The study of isotopes away from the beta stability valley is crucial for the understanding of nuclear structure, especially for neutron-deficient heavy nuclei. Here, the authors report the observation of the alpha-decay isotope 210-protactinium (Pa), extending the alpha-decay systematics of underexplored regions of the nuclides chart.

The transmission of light through opaque media is a complex process, owing to the many scattering processes of light. Here, the authors develop a method to determine the transmission eigenchannels through an opaque medium as a solution of diffusion equations.

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.

The characterization of 4,645 whole-genome and 19,184 exome sequences, covering most types of cancer, identifies 81 single-base substitution, doublet-base substitution and small-insertion-and-deletion mutational signatures, providing a systematic overview of the mutational processes that contribute to cancer development.

Investigating the inner structure of baryons is important to further our understanding of the strong interaction. Here, the BESIII Collaboration extracts the absolute value of the ratio of the electric to magnetic form factors and its relative phase for e + e − → J/ψ → ΛΣ decays, enhancing the signal thanks to the vacuum polarisation effect at the J/ψ peak.

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.

The semileptonic decay channels of the Λc baryon can give important insights into weak interaction, but decay into a neutron, positron and electron neutrino has not been reported so far, due to difficulties in the final products’ identification. Here, the BESIII Collaboration reports its observation in e+e- collision data, exploiting machine-learning-based identification techniques.

Artificial intelligence-based detection of gastric cancer at different stages from noncontrast computed tomography is suggested to be feasible in a retrospective analysis of large and diverse cohorts, including real-world populations in opportunistic and targeted screening scenarios.

A South China Sea expedition in 2021 identified a 3.5-km-deep site close to the Equator for a next-generation neutrino telescope: TRIDENT. A large array of advanced detectors will be arrayed on the seabed to probe fundamental physics and explore the extreme Universe.

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.

In this Perspective, members of the Aging Biomarker Consortium outline the X-Age Project, an Aging Biomarker Consortium plan for building standardized aging clocks in China. The authors discuss the project roadmap and its aims of decoding aging heterogeneity, detecting accelerated aging early and evaluating geroprotective interventions.

The authors enable recording of circuit-scale neuronal voltage dynamics at > 5 kHz sampling rate by using an acquisition pipeline for voltage imaging that assigns each region of interest to a single pixel in the detector, enabling optimally compressed acquisition of intensity traces.

A pan-cancer genomic analysis reports the effects of structural variations on chromatin domains (TADs). Most TAD disruptions do not result in appreciable changes in expression of nearby genes.

Nitrogen loss due to soil denitrification in global natural ecosystems is quantified using an isotope-benchmarking method, and is overestimated by almost two times in the current earth system models.

Grasslands tend to be limited by both nutrient and water availability. Here the authors use standardized field experiments to show that the effects of nutrient addition on grassland biomass may cancel out the negative impact of drought, but the outcome depends on aridity and other local conditions.

Low-dielectric-constant (k < 2) materials are needed to reduce crosstalk, delay and power consumption in microelectronic circuits. Here, the authors report the growth of low-k 2D fluoride-rich polymer thin films, showing good mechanical properties and their application for the realization of 2D MoS₂ transistors with improved performance.

The realization of high-performance flexible perovskite/crystalline-silicon tandem solar cells requires efficient photocarrier transport and mitigation of residual stress. Here, authors reveal the critical role of perovskite phase homogeneity, achieving flexible devices with efficiency of 29.88%.

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.

RMC-7977, a multi-selective RAS(ON) inhibitor, exhibits potent tumour-selective activity in multiple pre-clinical models of pancreatic ductal adenocarcinoma through a combination of pharmacology and oncogene dependence.

Viral pathogen load in cancer genomes is estimated through analysis of sequencing data from 2,656 tumors across 35 cancer types using multiple pathogen-detection pipelines, identifying viruses in 382 genomic and 68 transcriptome datasets.

Wastewater treatment plants are important reservoirs of antibiotic resistance genes (ARGs). Here, the authors analyze ARGs in a global collection of samples from wastewater treatment plants across six continents, providing insights into biotic and abiotic mechanisms that appear to control ARG diversity and distribution.

Dysregulated protein degradation drives diseases like cancer. Here, authors use protein language models to design target-binding peptides, which are subsequently attached to the catalytic domain of the OTUB1 deubiquitinase, generating “deubiquibodies” (duAbs). duAbs restore tumor suppressors and fusion oncoproteins, offering a programmable strategy for protein stabilization.

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 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 genome-wide association study in ~3 million individuals identifies 3,952 independent variants associated with educational attainment. A polygenic index explains 12–16% of variance for this trait and contributes to risk prediction for ten diseases.

Disorder has emerged as a promising tool to manipulate properties of superconducting circuits. Here the authors demonstrate the use of disordered spinodal superconductor for fluxonium qubit fabrication and reveal an interesting correlation between the material disorder and the 1/f-type flux noise.

A cell-culture method involving decellularized tissue scaffolds enables the spontaneous formation of cell colonies that phenotypically recapitulate in vivo organ-specific cancer metastases.

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.

Understanding deregulation of biological pathways in cancer can provide insight into disease etiology and potential therapies. Here, as part of the PanCancer Analysis of Whole Genomes (PCAWG) consortium, the authors present pathway and network analysis of 2583 whole cancer genomes from 27 tumour types.

Recently, clathrate superhydride superconductors have garnered significant attention. Here the authors measure the electron-phonon coupling strength and superconducting gap of an ultrahigh pressure superconductor LaH_10±δ by ultrafast spectroscopy, revealing a strong coupling nature of the superconductivity.

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.

Knock-in mice conditionally or constitutively expressing Cas12 variants enable a wide range of ex vivo and in vivo applications requiring multiplexed genome engineering.

Some cancer patients first present with metastases where the location of the primary is unidentified; these are difficult to treat. In this study, using machine learning, the authors develop a method to determine the tissue of origin of a cancer based on whole sequencing data.