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Shixiong ZHANG

Associate Professor

Education

Ph.D. in Computer Science

City University of Hong Kong
2017 - 2020

M.Sc. in Management Statistics

Zhejiang University of Finance and Economics
2014 - 2017

B.Sc. in Information Management and Information Systems

Zhejiang University of Finance and Economics
2010 - 2014

Research Interests

  • Bioinformatics
  • Single-cell Multiomics
  • Computational Intelligence
  • Applied Machine Learning

Introduction

Shixiong Zhang (his academic family tree) is an Associate Professor in the School of Computer Science and Technology at Xidian University, starting in Dec. 2020. He spent 3 years (2017-2020) to obtain his Ph.D. in Computer Science under the mentorship of Dr. Ka-Chun Wong at City University of Hong Kong. He was previously a trainee in the Lab of Prof. Jiang Qian in the School of Medicine at Johns Hopkins University. His broad research interests include bioinformatics, computational biology, single-cell omics, applied machine learning, and computational intelligence.

Experiences

Associate Professor

2020.12 - Present
Xidian University, Xi'an, China

Research Trainee

2019 - 2020
Wilmer Eye Institute, Johns Hopkins School of Medicine, MD, USA

Mentored by Prof. Jiang QIAN (Ph.D., Max Planck Institute)

Fundings

Natural Science Basic Research Program of Shaanxi - 2026
Fundamental Research Funds for the Central Universities - 2023 2025
National Natural Science Foundation of China (NSFC Youth Fund) - 2021

Publications

  • Disentangling the over-integration of single-cell and spatial multiomics data with transfer learning
    • Risheng Lu, Shixiong Zhang*, & Lin Gao*
    Big Data Mining and Analytics (2023)
  • LADSG: Label-anonymized distillation and similar gradient substitution for label privacy in vertical federated learning
    • Zeyu Yan, Yifei Yao, Xuanbing Wen, Shixiong Zhang*, Juli Zhang*, & Kai Fan*
    International Conference on Collaborative Computing: Networking, Applications and Worksharing (EAI CollaborateCom 2025)
  • scMGCL: accurate and efficient integration representation of single-cell multiomics data
    • Zhenglong Cheng, Risheng Lu, & Shixiong Zhang*
    Bioinformatics (2025)
  • Efficient generation of paired single-cell multiomics profiles by deep learning
    • Meng Lan, Shixiong Zhang*, Lin Gao*
    Advanced Science (2023)
  • Review of single-cell RNA-seq data clustering for cell type identification and characterization
    • Shixiong Zhang*, Xiangtao Li, Jiecong Lin, Qiuzhen Lin, Ka-Chun Wong
    RNA (2023)
  • Elucidating transcriptomic profiles from single-cell RNA sequencing data using nature-inspired compressed sensing
    • Zhuohan Yu, Chuang Bian, Genggeng Liu, Shixiong Zhang, Ka-Chun Wong, Xiangtao Li*
    Briefings in Bioinformatics (2021)
  • Feature Selection and Feature Extraction: Highlights
    • Hiu-Man Wong, Xingjian Chen, Hiu-Hin Tam, Jiecong Lin, Shixiong Zhang, Shankai Yan, Xiangtao Li, Ka-Chun Wong*
    ISMSI (2021)
  • Deep embedded clustering with multiple objectives on scRNA-seq data
    • Xiangtao Li, Shixiong Zhang, Ka-Chun Wong*
    Briefings in Bioinformatics (2021)
  • Uncovering the Key Dimensions of High-Throughput Biomolecular Data using Deep Learning
    • Shixiong Zhang, Xiangtao Li, Qiuzhen Lin, Jiecong Lin, Ka-Chun Wong*
    Nucleic Acids Research, (2020) IF 2018 = 11.147
  • Identification of Pan-cancer Ras Pathway Activation with Deep Learning
    • Xiangtao Li, Shixiong Zhang, Ka-Chun Wong
    Briefings in Bioinformatics (2020)
  • CRISPR-Net: A Recurrent Convolutional Network quantifies CRISPR Off-target Activities with Mismatches and Indels
    • Jiecong Lin, Zhaolei Zhang, Shixiong Zhang, Junyi Chen, Ka-Chun Wong*
    Advanced Sciences (2020)
  • Nature-Inspired Compressed Sensing for Transcriptomic Profiling from Random Composite Measurement
    • Shixiong Zhang, Xiangtao Li, Qiuzhen Lin, Ka-Chun Wong*
    IEEE Transactions on Cybernetics (2019) IF 2018 = 10.387
  • Synergizing CRISPR/Cas9 Off-target Predictions for Ensemble Insights and Practical Applications
    • Shixiong Zhang, Xiangtao Li, Qiuzhen Lin, Ka-Chun Wong*
    Bioinformatics 35 (7), 1108-1115. (2019) IF 2017 = 5.481
  • Review of Single-cell RNA-seq Data Clustering for Cell Type Identification and Characterization
    • Shixiong Zhang, Xiangtao Li, Jiecong Lin, Qiuzhen Lin, Ka-Chun Wong*
    arXiv (2019)
  • Multiobjective Genome-Wide RNA-Binding Event Identification from CLIP-seq Data
    • Xiangtao Li, Shixiong Zhang, Ka-Chun Wong*
    IEEE Transactions on Cybernetics (2019)
  • Single-cell RNA-seq Interpretations using Evolutionary Multiobjective Ensemble Pruning
    • Xiangtao Li, Shixiong Zhang, Ka-Chun Wong*
    Bioinformatics (2019)
  • Evolving Transcriptomic Profiles from Single-cell RNA-seq Data using Nature-Inspired Multiobjective Optimization
    • Xiangtao Li, Shixiong Zhang, Ka-Chun Wong*
    IEEE/ACM Transactions on Computational Biology and Bioinformatics (2019)
  • Early Cancer Detection from Multianalyte Blood Test Results
    • Ka-Chun Wong*, Junyi Chen, Jiao Zhang, Jiecong Lin, Shankai Yan, Shixiong Zhang, Xiangtao Li, Cheng Liang, Chengbing Peng, Sam Kwong
    iScience (2018)
  • Nature-Inspired Multiobjective Epistasis Elucidation from Genome-Wide Association Studies
    • Xiangtao Li, Shixiong Zhang, Ka-Chun Wong*
    IEEE/ACM Transactions on Computational Biology and Bioinformatics (2018)
  • Two-factor High-order Fuzzy-trend FTS Model based on BSO-FCM and Improved KA for TAIEX Stock Forecasting
    • Wenyu Zhang, Shixiong Zhang, Shuai Zhang*
    Nonlinear Dynamics (2018)
  • A Novel Method Based on FTS with Both GA-FCM and Multifactor BPNN for Stock Forecasting
    • Wenyu Zhang, Shixiong Zhang, Shuai Zhang*, Dejiang Yu, Ningning Huang
    Soft Computing (2018)
  • A Multi-factor and High-order Stock Forecast Model Based on Type-2 FTS Using Cuckoo Search and Self-adaptive Harmony Search
    • Wenyu Zhang*, Shixiong Zhang, Shuai Zhang, Dejiang Yu, Ningning Huang
    Neurocomputing (2017)

    Scholarships and Awards

    Outstanding Academic Performance Award - City University of Hong Kong, 2020, 2019, 2018
    Research Tuition Scholarship - City University of Hong Kong, 2019, 2018
    Postgraduate Studentship - Ph.D. Funding from HK Government 2017-2020
    Excellent Master Thesis of Zhejiang Province - Zhejiang Province, China, 2017
    National Scholarship - Ministry of Education, China, 2016

    Professional Activities

    Journal Reviewer

    Advances in Mechanical Engineering
    Applied Sciences
    Applied Soft Computing
    BioData Mining
    Biology
    Biology Open
    Bioinformatics
    Biosensors
    BMC Bioinformatics
    Briefings in Bioinformatics
    Computer Modeling in Engineering & Sciences
    Engineering Applications of Artificial Intelligence
    Frontiers
    Healthcare
    IEEE Journal of Biomedical and Health Informatics
    International Journal of Environmental Research and Public Health
    International Journal of Molecular Sciences
    Journal of Personalized Medicine
    Genes
    Mathematical Biosciences and Engineering
    Micromachines
    Neural Computing and Applications
    Nonlinear Dynamics
    Pathogens
    PeerJ Computer Science
    PLOS Computational Biology
    Renewable Energy
    Scientific Reports
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    Conference Chairships

    ISCMI 2022 Publications Co-chair
    ISMSI 2023 2022 Organizing Co-chair
    ICCCS 2022 Session Chair
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    Conference Reviewer/ Program Committee (PC)/ Technical Committee (TC)

    CSAE 2022
    CSSE 2022 (TP)
    IntelliSys 2022 (TC)
    CCEAI 2023 (TP) 2022 (PC)
    ICCCS 2023 (PC) 2022 (PC) 2021 (PC)
    ICIC 2022 (PC) 2021 (PC) 2020 2019
    DSIT 2022 (PC) 2021 (PC) 2018
    ICBRA 2022 (TC) 2021 (TC)
    ISCMI 2022 (PC) 2021 (PC) 2020 (PC) 2019 (PC) 2018 (PC)
    ISMSI 2023 (PC) 2022 (PC) 2021 (PC) 2020 (PC) 2019 (PC) 2018 (PC)
    ICONIP 2021 (PC) 2020 (PC)
    ICECE 2021 (TC)
    CFMAI 2021 (PC) 2020 (PC)
    DMCIT 2021
    ACM ICMLC 2019
    BiCOB 2019
    BiGCOM 2019
    DMBD 2019
    ICBDE 2019
    APBC 2018
    BiCOB 2018
    ICSI 2018
    IEEE BigData 2018
    PIC 2018