differential expression

Robustness of the inference of the distribution of fitness effects to selective sweeps

This study evaluates how selective sweeps affect DFE inference using fitdadi, finding that performance declines at low recombination rates and with unfolded SFS, but remains largely unbiased with a flexible demographic model.

Habitual sleep duration is associated with the cortical organisation of brain network controllability

The paper links habitual sleep duration to brain network controllability, finding longer workday sleep is associated with higher somatomotor controllability and lower visual cortex controllability.

Neurotransmitter receptor architecture links local neurochemistry to semantic memory

The paper investigates how neurotransmitter receptor organization in the human anterior temporal lobe relates to neurochemistry and semantic memory, finding coupled molecular-neurochemical relationships.

Isocaloric restriction normalizes body weight but not relative adiposity, adipose inflammation, or gut microbial diversity in high-fat diet-fed mice

Pseudoarthrobacter BD237 volatile organic compounds promote Brachypodium distachyon growth

This study shows that mVOCs from Pseudoarthrobacter BD237 enhance Brachypodium distachyon growth and stress tolerance by promoting photosynthesis and abiotic stress response.

EcoHIV Treated Primary Microglia Exhibit a Highly Specialized and Sex-Dependent Transcriptional State

This study investigates how EcoHIV affects microglial proliferation and gene expression, revealing a sex-dependent transcriptional response and a significant role for the Trem2/Dap12 signaling complex.

An evidence-governed agent harness for spatial transcriptomics prioritizes ICAM-1 as a target in lung fibrosis

DeepMAST, an AI system for spatial transcriptomics, identifies ICAM-1 as a therapeutic target in lung fibrosis through evidence-based analysis and validation.

PHC2-Dependent PRC1 Assemblies Stabilize Motor Neuron Hox Codes

This study shows PHC2-dependent PRC1 assemblies stabilize Hox gene boundaries and motor neuron identities during development.

Decoding & manipulating human intercellular signaling via scalable cell-free protein synthesis

The paper develops scalable cell-free protein synthesis platforms to generate single-cell RNA-sequencing data on immune cell responses to cytokines and other signals, enabling functional discovery and drug target prioritization.

In Step, the sole Drosophila TENT5 poly(A) polymerase, is required for spermatid elongation and individualization

This study identifies the Drosophila TENT5 poly(A) polymerase, Isep, as essential for spermatid elongation and individualization, with its function independent of poly(A) polymerase activity.

CircEPSTI1 regulates miR-942-5p-SERPINE1-AKT1 signaling axis to enhance dengue infection and is suppressed by Tiplaxtinin

This study identifies circEPSTI1 as a regulator of dengue infection through a miR-942-5p-SERPINE1-AKT1 signaling axis and shows that Tiplaxtinin suppresses this pathway to inhibit DENV replication.

Early innate immune signatures correlate with Ad26.COV2.S vaccine durability and protective efficacy

This study identifies early innate immune signatures following Ad26.COV2.S vaccination that correlate with vaccine durability and protective efficacy in rhesus macaques and humans.

Systematic genome analysis enables long-overdue taxonomic reorganization of genus Orthoflavivirus; potential assignment of over 50 new species

The paper proposes a genetic divergence threshold for demarcating orthoflavivirus species, identifying 25 new Euflavivirus and 33 new Fusivirus species.

Machine learning classification of fibromyalgia from blood transcriptomes: confounder benchmarking and implications for endometriosis-associated pain

This paper evaluates machine learning models for classifying fibromyalgia from blood transcriptomes, finding that demographic and cell-composition factors explain much of the signal.

TCF21 loss identifies a conserved inflammation-associated fibroblast state across Crohn's disease and ulcerative colitis

The paper identifies a conserved inflammation-associated fibroblast state in Crohn's disease and ulcerative colitis linked to TCF21 loss and shows TCF21 restoration can suppress inflammatory mediators.

A sensitive and specific microchimerism detection method using custom designed genotyping and companion qPCR assays

The paper develops a cost-effective and sensitive method for detecting microchimerism using custom genotyping and qPCR assays, validated in two populations.

MYC/MAX balance dictates cell progenitor fate by altering the HOX program in the Drosophila eye

This study shows that altering the MYC/MAX ratio in Drosophila eye progenitors changes cell fate by rewiring HOX gene expression and reprogramming progenitor identity.

Whole-brain normative modeling across multiple functional connectivity metrics in MEG

This paper introduces M/EEG-FUNCOIN, a normative modeling approach for whole-brain functional connectivity in MEG data, showing improved characterization of age and sex-related patterns and detection of connectivity deviations linked to cognitive ability.

Tropomyosin 3.1 Regulates Chondrocyte Cortical F-actin Stability and Homeostasis

This study investigates how Tpm3.1 stabilizes cortical F-actin in chondrocytes and how its loss drives catabolic gene expression through YAP and MRTF.

NK Cell Activation as an Immune Mechanism in Depression: Insights from Single-Cell Multi-Omics

The paper identifies NK cell activation as a genetic and functional contributor to MDD susceptibility using single-cell transcriptomics and population genetics.

An AI-based and coding-free integration for forest Leaf Area Index calculation

This paper introduces a coding-free AI method for improving leaf area index (LAI) calculation from hemispherical images, showing higher consistency and reliability compared to existing tools.

Somatotopic Organization of the Ventroposterior Nucleus of the Thalamus in Macaque Monkeys with Dorsal Spinal Cord Injuries Sustained During Early Postnatal Development

This study examines thalamic reorganization in macaque monkeys with spinal cord injuries sustained at different postnatal ages, finding that reorganization patterns mirror those in the somatosensory cortex.

Prediction of Systemic Lupus Erythematosus from Genotype and Gene-Expression Data: Batch Correction and Leakage Free Evaluation

This paper evaluates the prediction of SLE using genotype and gene-expression data with batch correction and leakage-free cross-validation, finding that expression data perform better than SNPs but face confounding issues.

From pose to behavior: SABER integrates identity-resolved multi-animal pose tracking with large-language-model-based behavioral factor discovery

SABER improves pose tracking and behavioral analysis in multi-animal videos by integrating identity-preserving tracking with behavioral factor discovery, showing reduced approach behavior in depression-susceptible mice.

The transcription factor BCL11A restores differentiation potential to aged oligodendrocyte progenitor cells

The paper identifies BCL11A as a transcription factor that restores differentiation potential in aged oligodendrocyte progenitor cells through computational analysis and experimental validation.

Climate-associated genomic variation across life stages reveals population-specific signals of local adaptation in European beech

The paper identifies climate-associated genomic variation in European beech across life stages, revealing population-specific adaptive responses to temperature and precipitation changes.

The epidermal growth factor (EGF) receptor family network in cardiac hypertrophy and heart failure

EGFR-family ligand mRNAs shift in failing human hearts; NRG1 and EGF drive distinct, differently ERBB2-dependent transcriptional programmes in rat cardiomyocytes; afatinib blunts mouse angiotensin II hypertrophy but worsens fibrosis.

RAStoERK: a reference interaction atlas for insights into signaling and disease

The paper creates a comprehensive reference map of the RAS/RAF/MEK/ERK pathway interactomes and their mutation-driven rewiring, revealing new interactions and disease links.

Dissociating Resting-State Networks of Pedohebephilic Preference and Child Sexual Offending Using Network-Based Prediction

The paper distinguishes pedohebephilic preference from child sexual offending using resting-state functional connectivity and network-based prediction, identifying distinct neural network alterations.

Postsynaptic TAK1-GluN2B axis supports hippocampal synaptic integrity and cognitive function during aging

This study identifies a postsynaptic TAK1-GluN2B signaling axis that maintains synaptic integrity and cognitive function, with reduced TAK1 levels contributing to age-related hippocampal decline.