CV

Ph.D. in Data Mining and Intelligent Information Processing

• ISTBI (Institute of Science and Technology for Brain-inspired Intelligence)
• Zhuobo Fellow at Fudan University
• Advisor: Prof. Shanfeng Zhu

B.E. in Computer Science & Technology

• Hongyi Honor College Student
• Outstanding Graduate (2025)
• National Scholarship (2023-2024)
• GPA: 3.91/4.00

PhD Student Researcher

• Integration and analysis of spatial multiomics data
• Advisor: Prof. Shanfeng Zhu

Undergraduate Researcher

• Developed methods for single-cell multiomics data integration and analysis
• Predicted the impact of drug and genetic perturbations on cell states
• Studied metabolic pathway design and molecular feature representation techniques
• Advisor: Prof. Lihua Zhang

iGEM Team Member (Head of Model Team)

• Gold Medal; Nomination for Best Foundational Advance Project
• A novel multi-level DNA memory device with CRISPR technology and its software suite

MoE-TCR: Mixture-of-experts framework for pan-specific TCR-epitope binding prediction

• Qu, Wei and Li, Jinxing and He, Zhentao and Wang, Jiayi and Zhu, Shanfeng
• DOI: 10.1016/j.patcog.2026.113737

SpaDC enables sequence-based integrative analysis and regulatory inference of spatial chromatin accessibility data

• Ma, Chuanlong and Yang, Chenghui and Zhen, Caiwei and He, Zhentao and Luo, Yong and Zhang, Lihua
• Published June 6, 2026
• DOI: 10.1038/s42003-026-10462-y

Interpretable Data Integration for Single Cell and Spatial Multi-Omics

• Yang, Chenghui and He, Zhentao and Nie, Qing and Zhang, Lihua
• Published online February 4, 2026
• DOI: 10.1016/j.cels.2025.101479

Fudan University Zhuobo Program Fellow

Outstanding Graduate, Class of 2025

National Scholarship

Teaching Assistant

• Assisted in teaching the fundamentals of computer organization.
• Held office hours for student consultations.

CRISPReporter - Model and Software Suite

• sgRNA generator utilizing machine learning and sequence alignment to predict on-target and off-target rates
• Editing simulator to emulate temporal relationships between multi-level signal recordings

Multiomics Integration via Feature-Guided Optimal Transport (FGOT)

• Feature-guided optimal transport for integration of cells across different modalities
• Contributions include coding, experiments, and co-authorship of the manuscript

MoE-TCR - Mixture-of-Experts for TCR-Epitope Binding Prediction

• Mixture-of-experts framework leveraging criss-cross attention for pan-specific TCR-epitope binding prediction
• Contributions include method development, experiments, and co-authorship of the manuscript

SpaDC - Spatial Chromatin Accessibility Data Analysis

• Graph-regularized convolutional neural network integrating DNA sequence, chromatin accessibility, and spatial location
• Contributions include method development, experiments, and co-authorship of the manuscript