Hello there! 🙋🏼 I am Yizheng Wang (王一争), a Ph.D. candidate at the University of Electronic Science and Technology of China.

I obtained my bachelor’s degree 🎓 in Computer Science and Technology from the    School of Information Science and Engineering, Yanshan University (燕山大学，信息科学与工程学院).

I am pursuing my Ph.D. degree 🎓 through a combined Master’s and Doctoral program (硕博连读) at the    Institute of Fundamental and Frontier Sciences,   University of Electronic Science and Technology of China (电子科技大学，基础与前沿研究院), majoring in Computer Science and Technology.

I am part of a joint training program (联合培养) at the    Yangtze Delta Region Institute (Quzhou),    University of Electronic Science and Technology of China (电子科技大学，长三角研究院).

With the support of the China Scholarship Council, I am currently part of a joint training program (联合培养) at the School of Computer Science and Engineering,   University of New South Wales (新南威尔士大学，计算机科学与工程学院), conducting research at the Data and Knowledge Research Group.

I am currently conducting research at the Malab laboratory 🔬 under the supervision of Prof. Dr. Quan Zou (邹权教授) and Research Fellow Dr. Yijie Ding (丁漪杰研究员). I am responsible for a project funded by the  NSFC. My main research areas are machine learning 🤖 and computational biology 🧬, with several publications in SCI-indexed journals.

📒 Research Interests

🤖 Machine learning

• AI for science (科学智能)
• Large Language Model (大语言模型)
• Support Bio-sequence Machine (支持生物序列机)
• Support Bio-sequence Neural Network (支持生物序列神经网络)

🧬 Computational biology

• Biological sequence analysis (生物序列分析)
• Biological interactions prediction (生物关联预测)
• Multiple sequence alignment (多序列比对)
• Therapeutic peptide design (治疗肽设计)
• Phylogenetic tree construction (系统发生树构建)

🔥 News

• 2025.10.29: I have been awarded the 🎓 National Scholarship for Doctoral Students! 🎉
• 2025.09.17: My paper has been recognized by as a 🏆 Highly Cited Paper! 🎉
• 2025.09.11: I have received the official offer from and have enrolled as a joint training Ph.D. student! 🎉
• 2025.08.27: I have been funded by the NSFC Youth Science Fund Category C as Host, 300,000 CNY￥! 🎉
• 2025.07.25: I attended 2025 International Conference on Intelligent Computing and gave an oral 🎤 presentation! 🎉
• 2025.05.13: My paper has been recognized by as both a 🏆 Highly Cited Paper and a 🔥 Hot Paper! 🎉
• 2024.12.27: I have been awarded the CSC Scholarship for the international ✈️ joint training program! 🎉
• 2024.10.07: My new paper has been accepted by the CCF A journal SCIENCE CHINA Information Sciences! 🎉
• 2024.03.17: My new personal homepage 🌐 has been released! 🎉

📝 Projects

Perform Experiments

(1) Rational De Novo Design of Multifunctional Therapeutic Peptides Guided by Support Bio-sequence

Yizheng Wang, Yijie Ding*, Quan Zou*

• Focuses on PDAC, aiming to develop multifunctional therapeutic peptides through rational de novo design guided by supportive bio-sequences.

Under Review

(2) Support Bio-Sequence-Guided Bio-Language Modeling of Nucleic Acids for Epigenetic Modification Prediction

Yizheng Wang, Pinglu Zhang, Yi Ding, Wenyu Zhang, Yanming Wei, Yijie Ding*, Quan Zou*

• SBNN advances the Support Bio-Sequence Machine (SBSM) framework toward bio-language modeling and epigenetic modification prediction.

• Introduced a feature-free sequence learning approach with weighted multiple sequence alignment, enabling unified modeling of local and global dependencies in DNA, RNA, and protein sequences.

• Evaluated on 76 datasets covering four modification types and 18 context lengths (11–500 nt), SBNN outperformed 17 state-of-the-art methods.

Continuing Support Project of the Original Exploration Project of the NSFC

Under Review

(3) JianMu*: Fast Phylogenetic Tree Construction via Siamese Bio-sequence Language Model-based Metric Learning

Yizheng Wang, Yijie Ding*, Quan Zou*

• A fast phylogenetic tree construction method based on a bio-large language model with siamese metric learning, trained on millions of phylogenetic trees.

• Reformulated phylogenetic inference as a distance learning problem in representation space, achieving high accuracy with substantially improved efficiency for large-scale analyses.

* In ancient Chinese mythology, JianMu(建木) is a sacred tree, a bridge connecting heaven and earth. In biology, the phylogenetic tree is a bridge connecting genes and evolution. Thus, we chose the name JianMu for our model, highlighting its role in uncovering species relationships.

Perform Experiments

(4) SSM: Support Subsequence Machine

Yizheng Wang, Yijie Ding*, Quan Zou*

🌐 Website

• Proposed a Support Bio-Subsequence Model that replaces global alignment with subsequence-level similarity, capturing functionally or structurally important local patterns beyond global sequence similarity.

• Formulated support subsequence selection as a pattern mining problem, yielding an interpretable white-box model that quantifies subsequence importance and provides mechanistic biological insights.

CCF A

(5) SBSM-Pro: Support Bio-sequence Machine for Proteins

Yizheng Wang, Yixiao Zhai, Yijie Ding*, Quan Zou*

SCIENCE CHINA Information Sciences, CCF A, CAAI A, IF2024=7.300, 中科院1区top

🏆 Highly Cited Paper (高被引论文) | 🔥 Hot Paper (热点论文)

🌐 Website | 📑 Paper | 💻 Code

• A novel framework that operates directly on raw protein sequences without explicit feature extraction, effectively addressing small-sample limitations of conventional machine learning and deep learning approaches.

• Developed a PSD pipeline that introduces structural and functional priors at the sequence level, improving robustness and interpretability.

• Introduced HCKDM-MKL, integrating global and local sequence kernels to achieve stable performance with strong generalization across protein function and modification tasks.

Original Exploratory Project of the NSFC

CCF B

(6) Identification of human microRNA-disease association via low-rank approximation-based link propagation and multiple kernel learning

Yizheng Wang, Xin Zhang, Ying Ju, Qing Liu, Quan Zou, Yazhou Zhang, Yijie Ding*, Ying Zhang*

Frontiers of Computer Science, CCF B, CAAI B, IF2022=4.200, 中科院2区

🏆 Highly Cited Paper (高被引论文)

• Proposed a low-rank approximation and multi-kernel learning–based link propagation method for efficient miRNA–disease association prediction, achieving high accuracy with reduced computational cost.

JCR Q2

(7) ET-MSF: A model stacking framework to identify electron transport proteins

Yizheng Wang, Qingfeng Pan*, Xiaobin Liu*, Yijie Ding*

Frontiers in Bioscience-Landmark, JCRQ2, IF2021=4.009

• Developed a computational approach to identify electron transport proteins, supporting studies of cellular respiration and mitochondrial function, and facilitating mechanistic research on diabetes, Parkinson’s disease, and Alzheimer’s disease.

CCF C

(8) SeqAlignXGBoost: Sequence Alignment and Feature Selection for m1A Modification Site Identification

Yizheng Wang, Yijie Ding*, Quan Zou*

2025 International Conference on Intelligent Computing (ICIC2025), CCF C

• Developed a computational tool for identifying RNA N1-methyladenosine modification sites, supporting studies of RNA stability, translational regulation, and gene expression control, and facilitating epitranscriptomic research.

• (9) A survey on multi-view fusion for predicting links in biomedical bipartite networks: Methods and applications, Yuqing Qian, Yizheng Wang, Junkai Liu, Quan Zou*, Yijie Ding*. Information Fusion, Q1, IF2024=14.700

• (10) TPMA: A two pointers meta-alignment tool to ensemble different multiple nucleic acid sequence alignments, Yixiao Zhai, Jiannan Chao, Yizheng Wang, Pinglu Zhang, Furong Tang*, Quan Zou*. PLOS Computational Biology, Q1, IF2024=3.800

• (11) DTI-RME: a robust and multi-kernel ensemble approach for drug-target interaction prediction, Yuqing Qian, Xin Zhang, Yizheng Wang, Quan Zou, Chen Cao, Yijie Ding*, Xiaoyi Guo*. BMC biology, Q1, IF2025=4.500

• (12) HAlign-G: rapid and low-memory multiple-genome aligner for large-scale closely related genomes, Pinglu Zhang, …, Yizheng Wang, Quan Zou*, Furong Tang*, Ximei Luo*. Genome Biology, Q1, IF2025=9.400

• (13) Application of Artificial Intelligence in Drug-Target Interactions Prediction: A Review, Qian Liao, …, Yizheng Wang, Yijie Ding*, Quan Zou*, Ke Han*. npj Biomedical Innovations

📜 Patents

• 2025.04: A Phylogenetic Tree Construction Method Based on Metric Learning, (No.CN202510533729.3)
• 2024.09: A Method for Identifying Nucleic Acid Modification Sites Using Neural Network Models, (No.CN202410638063.3)
• 2023.11: A Construction Method for Biological Sequence Ensemble Classifiers and Methods for Predicting and Classifying Biological Sequences, (No.CN202310249336.0)
• 2023.03: A Training Method and Model for Predicting microRNA-Disease Associations, (No.CN202211444626.2)

🎖 Funds

• 2025.08: Research on Biological Sequence Analysis Combining Large Language Models and Metric Learning, Youth Science Fund Project, Category C (青年科学基金C类), Host,  National Natural Science Foundation of China (国家自然科学基金委员会), 300,000 CNY￥
• 2021.11: Intelligent Question-Answering System for COVID-19 Medical Knowledge, The National College Student Innovation and Entrepreneurship Training Program (国家级大学生创新创业训练计划项目), Ministry of Education of the P.R.C. (教育部), 30,000 CNY￥

🏅 Awards

• 2025.10: National Scholarship for Doctoral Students (博士研究生国家奖学金), Ministry of Education of the P.R.C. (教育部), 30,000 CNY￥
• 2025.10: First-Class Academic Scholarship (一等学业奖学金), University of Electronic Science and Technology of China, 12,000 CNY￥
• 2025.09: Tuition Fee Scholarship (学费奖学金),   University of New South Wales, Sydney (新南威尔士大学), Full tuition waiver
• 2024.12: CSC Scholarship for Study Abroad (公派留学奖学金), China Scholarship Council (国家留学基金管理委员会), 30,000 AUD$
• 2022.06: Outstanding graduates of Hebei Province (河北省优秀毕业生), Hebei Provincial Department of Education (河北省教育厅)

📖 Educations

• 2024.09 - (now): Ph.D. candidate, Institute of Fundamental and Frontier Sciences, University of Electronic Science and Technology of China (电子科技大学，基础与前沿研究院)   
• 2025.10 - (now): Joint training student, School of Computer Science and Engineering, University of New South Wales (新南威尔士大学，计算机科学与工程学院)   
• 2023.07 - (now): Joint training student, Yangtze Delta Region Institute (Quzhou), University of Electronic Science and Technology of China (电子科技大学，长三角研究院)   
• 2022.09 - 2024.06: Master, Institute of Fundamental and Frontier Sciences, University of Electronic Science and Technology of China (电子科技大学，基础与前沿研究院)   
• 2018.09 - 2022.06: Bachelor, School of Information Science and Engineering, Yanshan University (燕山大学，信息科学与工程学院)  
• 2015.09 - 2018.06: High school student, Hebei Zhengding Senior High School, East Campus (河北正定中学，东校区)