cell-cell communication

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.

A fibroblast-CD8+ T cell circuit drives a Type 1 shift in allergic inflammatory memory

This study identifies a fibroblast-CD8+ T cell circuit that drives a Type 1 immune shift in allergic inflammatory memory through mechanistic and translational analysis in murine and human models.

Disrupted mannosidase enzymes in C9orf72 ALS/FTD

The paper identifies reduced Golgi enzymes MAN1A1 and MAN1A2 in ALS-associated microglia and astrocytes, linking impaired glycan metabolism to neuroinflammation and disease mechanisms.

Conserved synaptic modifications by humanized tau through diverse isoform- and mutation-specific intracellular interactions

The paper investigates how different humanized tau isoforms and mutations affect synaptic connectivity and interact with mitochondrial proteins in cortical neurons.

Early Progression Cells mark a stem-like state associated with pancreatic cancer initiation and progression

The paper identifies Early Progression Cells (EPCs) as stem-like cells in pancreatic cancer that drive progression and are associated with specific gene programs and interactions.

Discovering compositional, interpretable structure in social behavior

This paper introduces a method to model social behavior using decomposed linear dynamical systems, showing it captures complex, compositional actions more effectively than existing methods.

Plant-plant communication in tomato: mechanisms underpinning information transfer between plants

This study investigates plant-plant communication in tomato by analyzing metabolomic and volatile emissions changes in response to herbivory, showing mirror effects in immune system reprogramming between sender and receiver plants.

Comparative molecular analysis of histopathologic subtypes reveals shared epithelial remodeling yet distinct fibroblast programs in scleroderma lung disease

This study compares molecular features of SSc-NSIP and SSc-UIP with IPF, finding shared epithelial changes and distinct fibroblast programs.

Role of Very Long-Chain Fatty Acyl-Ceramides in Endocytic Uptake

This study identifies VLC fatty acyl-ceramides as essential for endocytic invagination by interacting with endocytic machinery and ORPs.

Platelet-endothelial crosstalk drives distinct endothelial dysfunction in bicuspid aortic valve disease

This study shows that platelet-derived signals cause distinct endothelial dysfunction in bicuspid aortic valve disease, leading to mitochondrial dysfunction and immune cell recruitment.

2D U-NET Deep Learning Architecture for Atherosclerotic Lesion Segmentation and Quantification

This paper develops a 2D U-NET model to segment and quantify atherosclerotic lesions in mouse aortic sections, achieving high accuracy and significantly reducing measurement time.

Generalizable virtual staining from histopathology to spatial proteomics across biological scales

This study introduces QUEST, a model that uses H&E histology to predict spatial protein expression, enabling virtual staining and analysis across biological scales.

Recruitment of intrasegmental and propriospinal interneuron networks of forelimb motor circuitry in chronic cervical contusion spinal cord injury

This study shows that PTEN inhibition improves forelimb motor recovery and circuit remodeling in chronic cervical SCI by enhancing spinal interneuron network recruitment and synaptic input.

Evolution of Vesicle Shape Parameters Based on A Deep-Learning Based Image Analysis Framework Over Extended Time Periods

The paper uses a deep-learning framework to analyze shape dynamics of GUVs over time, measuring morphometric changes and budding behavior.

Distinct processing of visual motion by transcriptomic cell types in the superior colliculus

The paper identifies how three transcriptomic cell types in the superior colliculus process visual motion with distinct feature selectivity, morphology, and connectivity.

Anti-TGFβ peptide P144 augments CAR-T cell efficacy through neutrophil recruitment and TME remodeling in malignant mesothelioma

This paper shows that delivering the anti-TGFβ peptide P144 via CAR-T cells enhances their efficacy in mesothelioma by recruiting neutrophils and remodeling the tumor microenvironment.

CO2-concentrating nanoparticles drive progressive photosynthetic and cell-wall remodelling in Arabidopsis thaliana cells

The paper shows that CO2-concentrating nanoparticles modify photosynthesis and cell wall structure in Arabidopsis cells over time.

Predicting seabird-vessel interactions from bird-borne data alone

This paper develops a method to predict seabird-vessel interactions using only seabird telemetry data, showing high accuracy but limitations in distinguishing fishing from nonfishing vessels.

Extracellular DDR1 targeting remodels collagen-rich tumor stroma and local immunity

This study develops DDR1-targeting nanobodies that remodel collagen-rich tumor stroma and immune compartments, enhancing tumor control without direct tumor-cell inhibition.

irAEGIS: Pathway-guided interpretable prediction of immune-related adverse events

irAEGIS predicts immune-related adverse events from pre-treatment scRNA-seq data using a pathway-guided interpretable model, outperforming existing methods and identifying biologically relevant immune programs.

Cigarette smoke extract and palmitic acid exposed patient-derived iPS- RPE cells as a model for AMD

This study examines how cigarette smoke extract and palmitic acid affect patient-derived iPSC-RPE cells, showing increased susceptibility in AMD-derived cells with altered stress responses and function.

Influence of antibody-antigen interaction on fluorescence of Rhodamine 6G conjugated to the antibodies measured in human serum

This study measures how antibody-antigen interactions affect the fluorescence of Rhodamine 6G-conjugated antibodies in human serum, showing non-linear spectral changes.

A medial entorhinal connectome reveals compartmentalized microcircuit architecture

This paper maps the synaptic architecture of the medial entorhinal cortex at synapse resolution, revealing compartmentalized microcircuit organization and potential mechanisms for spatial navigation.

Peripheral Axons Form Endoplasmic Reticulum-Rich Conduits With Breast Cancer Cells

The paper identifies ER-rich conduits formed by peripheral axons and breast cancer cells, revealing a structural interface for potential intercellular communication.

Graph neural network approach for inferring neuronal connectivity

This paper introduces CircuitGNN, a graph neural network that infers neural connectivity from population activity, showing high accuracy and robustness across different circuit sizes and recording conditions.