Chen Yang

Live imaging reveals oocyte membrane pre-remodeling forming permissive space for asymmetric division

The paper uses live imaging to show that mouse oocytes undergo membrane remodeling to create a pre-extrusion space for polar body extrusion, regulated by ERK-ZO-1 signaling.

Listeriolysin O recruits UBA1 to ubiquitinate NLRP3 and suppress inflammasome defence

This paper identifies a mechanism by which L. monocytogenes uses LLO to ubiquitinate NLRP3, suppressing inflammasome activation and enhancing bacterial survival.

Kintsugi decides, gene by gene, where spatial transcriptomics borrows information

Kintsugi improves spatial transcriptomics by letting data decide how much to borrow from neighbors and genes, showing it can identify epithelial programs and distinguish fibroblastic foci by composition rather than RNA amount.

FlashDeconv reveals resolution horizons in atlas-scale spatial transcriptomics

Leverage-weighted sketching plus sparse spatial regularization deconvolves 1.6 million Visium HD bins in 153 seconds on commodity hardware, revealing tissue-specific resolution limits where cell-type co-localization can reverse sign.

Machine learning-based definition of cellular senescence reveals pro-senescence potential implication in lung adenocarcinoma

This study introduces PreCSenM, a machine learning model that quantifies cellular senescence and identifies HDAC inhibitors as senescence inducers in lung adenocarcinoma.

Spatial ligand-receptor gene annotations carry conditional heritability association across human tissues

The paper introduces EdgeMap to assess conditional heritability of ligand-receptor gene annotations in spatial transcriptomics data, finding higher edge z-scores in biologically matched tissues.

A Single-Cell and Spatial Atlas of MVP-PAN Evolution Reveals a Desmoplastic Dependency to Overcome Glioblastoma Resistance

The paper constructs a single-cell and spatial atlas of glioblastoma resistance, identifying a 'Spatial Resistance Triad' and demonstrating that targeting stromal components can overcome therapeutic resistance.

ChatSpatial: Schema-Enforced Agentic Orchestration for Reproducible and Cross-Platform Spatial Transcriptomics

ChatSpatial enables reproducible spatial transcriptomics analysis by using an LLM to select and orchestrate tools with schema enforcement, improving parameter validity and workflow consistency.

G3DCT: An Interpretable Spatial Grid-based Framework with Temporal Convolution-Transformer for EEG Artifact Identification

G3DCT is a deep learning framework for EEG artifact identification that outperforms existing models, achieving a 2.8% F1-score improvement on combined artifacts.

Temporal foundation model unveils ancient HepatitisB virus evolution

This paper develops ViraChron, a temporal foundation model for HBV evolution, enabling accurate sequence completion and analysis of ancient HBV genomes.

Multiple-level organizational logic of the locus coeruleus-norepinephrine system in structure and function

The paper reveals how locus coeruleus-norepinephrine neurons organize to regulate brain-wide neural dynamics through region-specific axon projections and synchronized firing.