Xiao Yang

PromptBio: An Agentic Platform for End-to-End Computational Biomedical Research

PromptBio is an AI platform that translates research objectives into executable workflows, enabling reproducible and adaptable biomedical analyses.

HiFi-ST: High-Fidelity Reconstruction of Continuous Spatial Transcriptomic Expression Fields via Conditional Neural Fields

HiFi-ST improves spatial transcriptomic reconstruction by modeling continuous expression fields, outperforming existing methods on multiple datasets.

PromptBio-Bench: Benchmarking LLM-based Bioinformatics Agents for End-to-End Data Analysis

PromptBio-Bench evaluates LLM-based bioinformatics agents across 244 tasks, showing comparable performance between Biomni and ToolsGenie but declining accuracy with task difficulty.

ToolsGenie 2.0: A Scalable and Extensible Multi-Agent System for Bioinformatics Automation

ToolsGenie 2.0 automates bioinformatics analyses using a multi-agent AI framework, achieving 68.6% accuracy on an in-house dataset and 48.3% on BixBench.

Stress History Modulates CRF Neurons to Establish Resilience

The paper identifies a critical stress exposure period that drives neurophysiological changes in CRF neurons, leading to resilience in mice exposed to repeated social defeat stress.

PromptBio: A Multi-Agent AI Platform for Bioinformatics Data Analysis

PromptBio introduces a multi-agent AI platform for scalable, reproducible bioinformatics analysis using generative AI and natural language interaction.

TOGGLE delineates fate and function within individual cell types via single cell transcriptomics

TOGGLE identifies functional heterogeneity within cell types using single-cell transcriptomics, revealing distinct states like ferroptosis and apoptosis in ischemic stroke and uncovering epigenetic memory in neural stem cells.

Integrated analysis of high-throughput sequencing-based lncRNA-mediated ceRNA network in Hepatic Alveolar Echinococcosis

The paper identifies differentially expressed lncRNAs and mRNAs in HAE, constructs a ceRNA network, and validates a key regulatory axis involved in HAE progression.

Reversible and gain modulation of neuronal responses and sensorimotor behavior by mid-infrared stimulation

This study shows mid-infrared stimulation modulates neuronal activity and sensorimotor behavior in awake pigeons by altering neuronal gain through resonance with potassium channel carbonyl groups.

First-in-human case report: AAV9-hGAA gene therapy for a patient with infantile-onset Pompe disease.

A single intravenous dose of AAV9-hGAA gene therapy improved motor milestones and GAA enzyme activity in an infant with infantile-onset Pompe disease.

Black swimming dots in cell culture: the identity, detection method and judging criteria

The paper investigates the origin, detection, and criteria for identifying black swimming dots (BSDs) in cell culture, addressing their nature and impact on experiments.