Search

SCIFER detects clonal selection in whole-genome sequencing data using a population genetics model. Applied to a range of somatic tissues, SCIFER quantifies stem cell dynamics and infers clonal ages and sizes without requiring knowledge of driver events.

Experiments on the deformation and bursting of elastic capsules impacting rigid walls are reported, revealing an analogy to the impact of liquid drops. The developed model for macroscopic objects could potentially be expanded to microscopic scales.

This study examined the role of rat frontal and parietal cortices in choosing whether to gamble versus play it safe. A combination of perturbations, electrophysiology and quantitative modeling establishes that the frontal cortex is important for representing the expected utility of options in the service of economic choice.

Elite and viremic controllers of HIV can spontaneously regulate viral replication, but some lose this ability over time. In this longitudinal cohort study, 31% of viremic and 3% of elite HIV controllers lost viral control over 17 years. Specific T-cell– related proteins distinguish controller types and predict loss years in advance.

Generating highly squeezed states for quantum sensing requires precise entanglement properties, which makes it a hard task. Now a conjecture identifies a realistic regime of magnetic order at finite temperatures that enables scalable spin squeezing.

Mussels produce a dynamic bio-interface between their living tissue and their non-living byssus attachment, relevant for design of implant devices. Here, authors discover a mechanoresponsive protein that may mediate mechanosensing at the interface.

Year-round tracer data from the MOSAiC expedition reveal strong variability in Siberian matter dispersal along the Arctic Transpolar Drift, driven by shifting river inputs and ice–ocean exchange, underscoring complex dynamics in a changing Arctic

Most human genes undergo alternative splicing, but population-level variation is poorly understood. Here, the authors map over 57,000 naturally variable exons across 838 individuals, revealing widespread splicing diversity and its impact on gene expression and genetic interpretation.

Resonant inelastic X-ray scattering interferometry reveals a highly entangled electronic phase in Nd₂Ir₂O₇, enabling extraction of its entanglement structure and confirming the cubic-symmetry-breaking order predicted from complementary Raman spectroscopy.

Here the authors develop DAESC, a statistical method for differential allele-specific expression analysis using single-cell RNA-seq data. Application of DAESC identifies dynamic regulatory effects along endoderm differentiation and differential effects between type 2 diabetes and healthy controls.

The authors demonstrate a robust and rigorous framework that can enumerate up to 100 fluorescent labels in a diffraction limited spot using Bayesian nonparametrics.

Negative selection removes deleterious genetic variation, and can influence genetic architectures and evolution of complex traits. Here, the authors analyze data from 25 UK Biobank diseases and complex traits, and quantify frequency-dependent genetic architectures which suggests actions of negative selection.

The authors propose wave-mixing cathodoluminescence, where laser-electron wave mixing in a nonlinear optical cavity upconverts low-frequency molecular resonances into visible photons, enabling nanoscale fingerprinting with visible light sources and detectors.

Reliably probing rejuvenation and memory effects in spin glasses by means of simulations is difficult. Now, a state-of-the-art numerical study shows that at least three different length scales play a crucial role in aging dynamics of spin glasses.

Here, as part of the Sherlock-Lung study, the authors profile the microbiomes of 940 lung cancers in never smokers finding no significant associations with demographic and clinical features, suggesting lung bacteria are unlikely to have a sizable role in lung cancer.

Current interest in tuning optoelectronic properties of two-dimensional materials focuses on phase and strain engineering. Here the authors propose a novel approach to achieve nanoscale composition/strain patterns and 3D objects with tailored properties using 2D transition metal dicalchogenide alloys.

Distinguishing treatment failure from reinfection is crucial for assessing antimalarial efficacy in endemic regions. Here the authors introduce the probabilistic classifier PfRecur, a software utilizing Bayesian analysis to improve accuracy in identifying treatment failures in polyclonal infections, and apply it to data from Angola.

How tree diversity effects on ecosystem functioning vary along climatic gradients is unclear. Here, analysing data from 15 experimental forest sites, the authors show that tree growth responses to neighbourhood species diversity are stronger in wetter climates but are unaffected by interannual climatic variation within sites.

Pulmonary type 2 inflammation is associated with type 2 innate lymphoid cells. Here the authors use the Collaborative Cross mouse panel to show that ILC2 abundance during type 2 lung inflammation is different across the panel and identify free-fatty acid receptor 3 (Ffar3) as a gene responsible and show cytokine and ILC2 functional changes.

Experimental measurements of high-order out-of-time-order correlators on a superconducting quantum processor show that these correlators remain highly sensitive to the quantum many-body dynamics in quantum computers at long timescales.

During early platelet spreading a novel F-actin structure forms, called the actin nodule. Here Poulter et al.demonstrate that actin nodule formation depends on WASp and the Arp2/3 complex, and using super-resolution microscopy they show that nodules bear a structural resemblance to podosomes.

How lightning occurs in dusty atmospheres remains largely unknown because of the complexity of the turbulent flows involved. Di Renzo and Urzay reveal a flow-driven mechanism of charge separation by simulating turbulence laden with hundreds of millions of electrically charged inertial particles.

Designing efficient photonic neuromorphic systems remains a challenge. Here, the authors develop a new class of memristor sensitive to the dual electro-optical history obtained by exploiting electrochemical, photovoltaic and photo-assisted oxygen ion motion effects at a high temperature superconductor / semiconductor interface.

Alström syndrome (AöS) is a rare genetic disorder characterized by metabolic problems. Here, the authors show that in AöS models, defects in cilia and autophagy lead to ACBP accumulation, which drives obesity. An anti-ACBP antibody reduces weight gain and metabolic dysfunction, highlighting ACBP as a therapeutic target for this ciliopathy.

The hydraulic response time of aquifers with similar residence times varies widely across the globe. Water levels in some aquifers containing fossil groundwater can be controlled by modern climates, according to an analysis of 31 major aquifers.

Genes2Genes is a dynamic programming framework that enables precise alignment for single-cell trajectories at the per-gene level.

Based on a tree-diversity experiment, the authors introduce and test an approach to quantify net biodiversity effects on stem biomass in young forests using airborne spectroscopic imaging.

An algorithm called time–magnitude reinforcement learning (TMRL) extends distributional reinforcement learning to take account of reward time and magnitude, and behavioural and neurophysiological experiments in mice suggest that midbrain dopamine neurons use TMRL-like computations.

Kim et al. show that nuclear pore complex (NPC) formation is strongly upregulated during a specific neurodevelopmental window. In neurons, torsinA is required for the maturation and normal localization of nascent NPCs, but not their density.

Longitudinal population-based surveillance identifies shifts in HIV transmission patterns related to age and sex, suggesting that HIV programmes to increase HIV suppression in men are crucial to reduce incidence in women.

Solid organ transplant recipients are at increased risk of infectious disease and have unique molecular pathophysiology. Here the authors use host-microbe profiling to assess SARS-CoV-2 infection and immunity in solid organ transplant recipients, showing enhanced viral abundance, impaired clearance, and increased expression of innate immunity genes.

Gas vesicle protein nanostructures can damage host bacteria when strongly expressed. Here, authors develop a dual-inducer timing circuit that pre-expresses assembly-factor proteins, limiting toxic aggregation while maintaining gas vesicle production.

Artificial intelligence (AI) can greatly improve healthcare delivery and outcomes, but potential embedded biases can affect fairness in clinical deployment. Here, the authors develop a simulation-based approach to explore which formalisations of AI algorithmic fairness translate into long-term outcome fairness, with a focus on breast cancer.

By using superconducting quantum interference device arrays as microwave impedance transformers, piezoelectric microwave–acoustic transduction operating close to the maximal efficiency–bandwidth product of lithium niobate can be achieved.

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.

By learning to pair dermatological images and related concepts in a self-supervised manner, a visual-language foundation model is shown to have comparable performance to supervised models for concept annotation and is used to scrutinize model decisions for enhanced interpretability and accountability of medical imaging applications.

A combination of mouse model data and data from a randomized phase 2 trial in patients with breast cancer in remission demonstrates feasibility, safety and a reduction in residual tumor cells following treatment with hydroxychloroquine and/or everolimus.

Selective autophagy helps to degrade aggregated proteins accumulating in neurodegenerative diseases. Here, the authors show that NEMO, a ubiquitin binding protein previously linked to innate immune signaling, is recruited to misfolded proteins and promotes their autophagic clearance by forming condensates with the autophagy receptor p62.

Citizen-science data on bird observations from eastern North America show that the timing of spring arrival of migratory birds is broadly correlated with fluctuations in vegetation green-up but that the varying sensitivity of different bird species to this phenological event is linked to their different migratory strategies.

The authors report the discovery of charge order with onset temperature of 800 K in the kagome superconductor YRu₃Si₂. In addition, they observe time-reversal symmetry breaking below 25 K, field-induced magnetism below 90 K and bulk multi-gap superconductivity below 3.4 K.

In response to intracellular signals, bacterial translational riboswitches embedded in mRNAs can regulate gene expression through inhibition of translation initiation. Here, the authors describe SiM-KARTS, a novel approach for detecting changes in the structure of single RNA molecules in response to a ligand.

Fishing has had a profound impact on global reef shark populations, and the absence or presence of sharks is strongly correlated with national socio-economic conditions and reef governance.

An approach combining bioorthogonal chemistry with genetically encoded fluorogen-activating proteins enables subcellular imaging of phospholipids and glycans, as well as the visualization of lipid transport between organelles and lipid asymmetry across membrane leaflets.

Controlling the self-assembly of small molecules within living animals is complicated because of the complex and dynamic nature of the physiological environment. Here, a strategy for directing in situ self-assembly of small molecules into fluorescent nano-aggregates in living mice is demonstrated. The nano-aggregates can be used for imaging caspase-3/7 activity in human tumour xenograft mouse models.

Turbulent flows may be regarded as an intricate collection of mutually-interacting vortices. Here, authors investigate the statistics of velocity circulation in quantum and classical turbulence and propose a connection between intermittency on both cases.

Whole-genome sequencing of 1,013 clonal haematopoietic colonies from myeloproliferative neoplasms of 12 individuals reveals haematopoietic phylogenies and indicates that driver mutations are acquired sequentially, starting early in life.

Nanomechanical measurements of molecular thin films are non-trivial due to ease of perturbation of the molecular surface. The authors present a direct, experimental demonstration of the tunability in the nanomechanical properties for a family of molecular semiconductors with systematic alkyl sidechain substitution.