cell-cell communication

Epidermal Langerhans Cells Act as Neuroimmune Regulators of Pain and Itch

This study identifies Langerhans cells as immune-derived amplifiers of cutaneous sensory signaling and identifies semaphorin 7A as a mediator of LC-induced itch potentiation.

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.

CD300f is required for efficient lipid handling during cuprizone-induced demyelination

This study shows CD300f is essential for microglial lipid handling and remyelination during demyelination, with deficits in lipid metabolism and motor coordination in its absence.

Single-cell multi-omics identify OTP and NOVA1 as regulators of leptin action in hypothalamic feeding circuits

This study uses single-cell multi-omics to identify OTP and NOVA1 as key regulators of leptin action in hypothalamic feeding circuits, revealing cell-type-specific transcriptional and regulatory changes.

CauloBrowser 2.0: an AI powered update

CauloBrowser 2.0 updates the systems-biology database for Caulobacter crescentus with AI-powered tools for querying and visualizing experimental data.

A single-cell transcriptomic atlas of paper wasp brains highlights Kenyon cells' role in social behavior

The paper uses single-cell transcriptomics to analyze brain cells in paper wasps, showing that Kenyon cells vary with social roles and respond to social interactions.

MitoDecode: quantitative phenotypic decoding of mitochondrial stress states from fluorescence images

MitoDecode assesses mitochondrial stress types and severity from fluorescence images without segmentation, showing adaptability across cell types and stress conditions.

Systematic comparison of gliflozins identifies a selective anti-calcifying effect of canagliflozin beyond canonical SGLT2 inhibition

This study compares gliflozins and finds canagliflozin uniquely reduces vascular calcification through mechanisms beyond SGLT2 inhibition, affecting VSMC metabolism and calcification.

Preferential Isoform Usage and Isoform Switching in Systemic Lupus Erythematosus Patients with Distinct Autoantibody Profile

The paper identifies subgroup-specific isoform usage and switching in SLE patients with distinct autoantibody profiles, highlighting their functional relevance in autoimmune pathogenesis.

Virtual dynamics of spatiotemporal single-cell interactions

CytoBridge reconstructs continuous virtual cell dynamics from sparse spatial transcriptomic data across development, regeneration, and neurodegeneration.

Measuring neuronal input-output operations in vivo with random access projection microscopy

This paper introduces SLAP2, a high-speed microscope for measuring submicron synapses and dendritic voltage in behaving mice, revealing nonlinear input-output amplification in neurons.

Regenerative epithelial spike cells instruct immune niche homeostasis in zebrafish fin epidermis

The paper identifies a novel epithelial cell type in zebrafish fins, spike cells, and shows their role in maintaining immune cell niche homeostasis through interactions with mpeg1+ immune cells.

Persistent hippocampal traces of lifelong spatial memory

The paper shows that mice retain spatial memory in the hippocampus after long absences, with neural patterns persisting despite changes in individual neuron activity.

Temporal Structure in Resting-State fMRI under Marginal and Cross-Spectral Surrogate Controls

The paper evaluates temporal complexity measures in resting-state fMRI to identify disease-related changes, finding that real data show greater outliers than randomized controls.

Multicellular Perturb-seq Reveals Lineage-Specific Transcriptional Control During Human Cardiac Organoid Development

This study uses Perturb-seq with CRISPRi to analyze how cardiac and vascular transcription factors coordinate lineage commitment and cross-lineage signaling in human cardiac organoids.

Deducing splicing events from transcript sets with splicelogic

splicelogic converts transcript-set comparisons into interpretable splicing events, enabling downstream analysis of isoform changes in RNA-seq data.

Automahout: an autonomous image analysis system for cell tracking

Automahout autonomously tracks cells in time-lapse images using a self-tuning system that annotates, trains, and refines models without human input, achieving high TRA scores on public datasets.

Single-Cell Transcriptomics Reveals Tumorigenic Lineages and Interactions Persisting and Evolving From Premalignancy to Cancer in the Stomach

The paper uses single-cell transcriptomics to track molecular changes from premalignancy to cancer in gastric tissue, identifying persistent and evolving tumorigenic lineages and markers like EMB.

RadMultiBench: A Reproducible Dual-Task Benchmark Exposing the Limits of Pre-Trained Vision-Language Models Across Thoracic and Breast Imaging

RadMultiBench evaluates pre-trained vision-language models on medical imaging tasks, showing performance gaps in report generation and classification across thoracic and breast imaging.

40 Hz visual stimulation increases gamma-band functional connectivity between visual, parietal and frontal regions

This study shows that 40 Hz visual stimulation increases gamma-band functional connectivity between visual, parietal, and frontal regions, with the visual-parietal connection being most significant.

LCN2+ Astrocytes Mark a Pro-inflammatory Astrocyte State Associated with Secondary Brain Injury After Cerebral Venous Thrombosis

Simple, static, spiking nonlinearities can account for seemingly complex interactions between visual, motor and cognitive variables in the visual cortex.

The paper shows that simple nonlinearities in the visual cortex can explain complex interactions between visual, motor, and cognitive variables through additive input modulation.

Clonally Convergent Tph/Tfh-like CD4+ T Cells are Shared Across Recovery and Recurrence in Experimental Periodontitis

The paper identifies clonally convergent Tfh/Tph-like CD4+ T cells that persist in the mucosa after recovery from periodontitis and contribute to recurrence.

XRN1 couples RNA granule remodelling to global mRNA decay triggered by the activity of a viral endoribonuclease

The paper investigates how XRN1 links RNA granule remodeling to global mRNA decay triggered by the viral endoribonuclease vhs, revealing a sequential model of translational arrest and degradation.

Systematic comparison of genetically encoded F-actin probes for visualizing actomyosin dynamics in vivo using C. elegans

The paper compares three F-actin probes in C. elegans, finding mStayGold offers best brightness and photostability, while mNeonGreen is suitable for photobleaching applications.

Unified cell segmentation for spatial transcriptomics via transcript reassignment

Tracel improves cell segmentation in spatial transcriptomics by assigning transcripts to cells using optimal transport, enhancing cell-type separation and reducing contamination.

Aging activates latent enhancers that can be reversed withexercise

This study identifies age-acquired enhancers in mouse hearts and shows that exercise can reverse their activation.

Cross-cancer knowledge transfer for lymph node metastasis prediction: Applicability of an axillary lymph node-based deep learning model

This paper evaluates a deep learning model trained on axillary lymph nodes for predicting metastasis in lymph nodes from different anatomical regions across cancers.

Single-Cell RNA Sequencing Reveals Distinct Cellular and Molecular Features of Steroid-Induced Osteonecrosis of the Femoral Head Compared to Alcohol-Induced Osteonecrosis and Hip Osteoarthritis

This study uses single-cell RNA sequencing to compare cellular and molecular features of steroid-induced and alcohol-induced osteonecrosis of the femoral head with hip osteoarthritis, identifying distinct immune and stromal cell signatures.

Uncovering cross-signal interactions in single-cell and spatial omics

CRISP identifies and localizes interactions between biological signals in single-cell and spatial transcriptomic data, revealing their effects on tissue function and gene regulation.