Yuxiang Li

DCAF: Unifying Data Validity, Evaluation Validity and Predictive Modeling for Single-cell Perturbation Simulation

DCAF improves single-cell perturbation simulation by addressing data, evaluation, and model validity, outperforming baselines in generalization and recapitulating regulatory heterogeneity in mouse brain.

RepGene: Auditing Condition-Specific Fusion Biases for Multi-View Gene Representations

The paper evaluates multi-view gene representations under a matched contract, showing condition-dependent fusion operator rankings across different view combinations and tasks.

Scaling genome annotation across the eukaryotic tree of life with OrionGeno

OrionGeno annotates over 5,300 eukaryotic genomes using a phylogeny-aware deep learning model, outperforming existing methods in gene and protein structure prediction.

The genetic repertoire of the deep sea: from sequence to structure and function

This study analyzes the genetic diversity of the deep sea, linking protein structures to genetic variants and identifying biotechnologically relevant features.

Magnetogenetic control of endogenous calcium signaling via ROS-sensitive ion channels reveals astrocytic regulation of neural circuit activity

This paper demonstrates that magnetic control of astrocytic calcium signaling can modulate neural circuit activity, introducing a tool for wireless, cell-specific calcium regulation.

BiOmics: A Foundational Agent for Grounded and Autonomous Multi-omics Interpretation

BiOmics introduces an AI agent that improves multi-omics interpretation by combining reasoning and embedding spaces, outperforming existing methods in variant discovery, cell annotation, and drug repurposing.

Spatially resolved gene regulatory and disease vulnerability map of the adult Macaque cortex

The paper integrates single-cell ATAC and transcriptomic data with spatial transcriptomics to map regulatory features and disease vulnerabilities in macaque cortex.