human

Microbially conjugated bile acids differentially affect the lifecycle and pathogenesis of Clostridioides difficile

The paper synthesizes and tests microbially conjugated bile acids (MCBAs) to determine their effects on Clostridioides difficile lifecycle stages, revealing amino acid-dependent inhibitory or promoting effects.

Proteome-wide discovery of novel diagnostic antigens for coccidioidomycosis

This study identifies novel diagnostic antigens for coccidioidomycosis using high-dimensional peptide serology, showing improved accuracy in distinguishing infected individuals from controls.

Fatty Acid Synthase Binds Cellular mRNAs and its Depletion Reduces Translational Efficiency

This study identifies FASN's RNA binding sites and shows its depletion reduces translational efficiency of associated mRNAs.

Label-free flow operators and stability operators from single-cell time courses: what local dynamical operators can and cannot identify

This paper introduces scJDO2, a method to separate score and flow operators from single-cell time courses, evaluating their ability to identify unstable cells and bifurcations in hematopoiesis.

DisCell: Separating Spillover from Niche Response in Spatial Transcriptomics

DisCell identifies and separates spillover from niche responses in spatial transcriptomics data, confirming a previously reported finding about esophageal cancer cells.

A novel KIR3DL2-directed CAR T-cell therapy for cutaneous and systemic T-cell lymphomas

This paper develops a KIR3DL2-directed CAR T-cell therapy for T-cell lymphomas, showing preclinical efficacy and safety in xenograft models.

ER stress-associated IRE1α signalling links impaired QPRT-dependent NAD⁺ biosynthesis to reduced oocyte competence

This study links ER stress and impaired NAD biosynthesis via QPRT to reduced oocyte quality and shows that NMN supplementation improves oocyte function and early embryonic development.

Mutant Isocitrate Dehydrogenase 1 Alters Extracellular Vesicle Secretion and Cargo Composition in Cellular Models

This study shows mutant IDH1 increases sEV secretion and alters their cargo composition in glioma and chondrosarcoma cells, with D2HG packaged into sEVs and cell-type-specific cargo remodeling.

Learning interpretable compositional features associated with continuous covariates

This paper introduces IsoVita, a framework for learning interpretable compositional features from continuous covariates, showing improved detection of temporal isoform variation in human brain RNA-seq data.

Human organoid screen links transient translational modulation to progenitor progression in corticogenesis

The paper screens human cortical organoids with small molecules to identify translational modulators affecting progenitor progression in corticogenesis, finding Emetine promotes neuronal differentiation.

TestNet-PA: Sampling-Zero-Aware Inference of Microbial Presence-Absence Networks

TestNet-PA addresses sampling zeros in microbial presence-absence networks by modeling them as structural or sampling zeros, improving FDR control and sensitivity compared to Fisher's exact test.

Endothelial protein C receptor is an entry receptor for Langya virus

This study identifies the endothelial protein C receptor (EPCR) as the entry receptor for Langya virus and reveals the molecular basis of its interaction with the viral attachment glycoprotein.

Genomic characterization and evolutionary path of human satellite 1B in primates highlight a dynamic relationship with transposable elements

This study characterizes HSat1B across primates, showing its evolutionary origin linked to transposable elements and lineage-specific expansion in Homininae.

Epigenome-informed Polymer Modeling Reveals Chromosome Folding Landscapes across Distinct Genetic and Epigenetic Contexts

This study uses epigenome-informed polymer modeling to generate chromosomal conformational ensembles from epigenomic data, revealing how genetic and epigenetic contexts shape chromosome folding landscapes.

Organotchi: an open-source tool for the automated segmentation, morphological characterization, and longitudinal tracking of organoids

Organotchi automates segmentation and morphological analysis of neural organoids, quantifying features and tracking changes over time to improve quality assessment and downstream analysis.

Concussion decreases brain signal variability

This study shows that concussion reduces BOLD signal variability in specific brain networks, linking it to symptom severity and cognitive decline.

TailEnrich enables discovery of dysregulated genes through disease sample enrichment testing

TailEnrich identifies dysregulated genes in patient subsets by testing expression distribution tails, outperforming DESeq2 and edgeR in simulated data and uncovering novel genes in Alzheimer's disease.

Global repression of mesenchymal genes in epithelial cells by the histone demethylase LSD1

This study shows LSD1 represses mesenchymal genes in epithelial cells, maintaining epithelial identity, and challenges the therapeutic use of LSD1 inhibition for EMT control.

Satellite cell glucocorticoid receptor restrains myogenic commitment without mediating the effects of therapeutic glucocorticoids on muscle repair

This study shows that satellite cell glucocorticoid receptor (GR) maintains quiescence but does not mediate therapeutic GC effects on muscle repair, highlighting the importance of treatment timing and context.

Seed Amplification Assay-Based Detection of Alpha-Synuclein Aggregates Outperforms Immunohistochemical Analysis in the Intestinal Mucosal Biopsies of Parkinson's Disease and Multiple System Atrophy Participants

This study compares a seed amplification assay for alpha-synuclein aggregates with immunohistochemistry in intestinal biopsies of Parkinson's disease and multiple system atrophy patients, finding the assay detects aggregates more frequently and with higher specificity.

Quantum Entanglement as a Physical Determinant of Genomic Instability in TP53

The paper explores whether quantum entanglement, measured via von Neumann Entropy, influences TP53 mutation patterns, finding elevated entropy at known mutational hotspots but cautioning about limited validation.

Druggable CSNK2A1-MeCP2 regulatory axis links Okur-Chung neurodevelopmental syndrome with MECP2-related disorders

The paper identifies a druggable CSNK2A1-MeCP2 regulatory axis linking Okur-Chung neurodevelopmental syndrome with MECP2-related disorders through CRISPR screens and mouse models.

Integrative Multiomics Analysis of the Angiogenesis-EMT Interface in Head and Neck Squamous Cell Carcinoma

This study identifies coordinated angiogenesis-EMT gene programs in OSCC using multi-omic analysis and validates candidate genes through external datasets and protein-level confirmation.

Isoform diversity as a complementary dimension of gene expression

The paper shows isoform diversity is a distinct dimension of gene expression, complementary to gene-level abundance, and changes with age and tissue-specific processes.

Lysenin Induced Membrane Curvature on Erythrocytes and Nanoporous Mica Free Standing Membranes

This study shows lysenin pores induce membrane curvature into rigid dome-like structures, suggesting beta-PFTs alter host cell membranes beyond pore formation.

Long-read DNA sequencing reveals global hypomethylation and focal hypermethylation in SDHx-deficient pheochromocytoma and paraganglioma

The paper uses long-read sequencing to analyze DNA methylation patterns in SDHx-deficient PPGLs and finds global hypomethylation with focal hypermethylation at specific CpG islands.

Material context and TGF-β blockade timing determine retained matrix in patient-derived bioprinted keratoconus stroma

This study shows that timing of TGF-β blockade and material context affect matrix retention in bioprinted keratoconus stroma, with optimal regimens improving collagen retention and reducing contractile gene expression.

Homeostatic fibroblast niche collapse in clinically uninvolved skin marks a pre-fibrotic stage of systemic sclerosis

The paper identifies a pre-fibrotic stage in scleroderma by analyzing spatial transcriptomic changes in clinically uninvolved skin, showing early reprogramming of fibroblasts and vascular smooth muscle cells.

Walking delays auditory processing in humans alongside a global shift in aperiodic neural activity

Elevated precontractile calcium set point is sustained by limited PMCA1 export in dystrophic muscle

The paper shows that dystrophic muscle has an elevated precontractile calcium set point sustained by limited PMCA1 export in C. elegans and human myoblasts.