杨志远

自2017年12月入职杭州电子科技大学以来，已发表SCI论文26篇，其中一作或者通讯作者21篇。

1. Zhiyuan Yang, and Stephen Kwok-Wing Tsui. Functional annotation of proteins encoded by the minimal bacterial genome based on secondary structure element alignment. Journal of proteome research, 2018, 17(7): 2511-2520.

2. Liu, Xiao-Yu, Kevin Yi Yang, Ming-Qiang Wang, Jamie Sui-Lam Kwok, Xi Zeng, Zhiyuan Yang, Xiao-Jun Xiao et al. High-quality assembly of Dermatophagoides pteronyssinus genome and transcriptome reveals a wide range of novel allergens. Journal of Allergy and Clinical Immunology 2018, 141(6): 2268-2271.

3. Xi Zeng, Jamie Sui-Lam Kwok, Kevin Yi Yang, Kenneth Siu-Sing Leung, Mai Shi, Zhiyuan Yang, Wing-Cheong Yam, and Stephen Kwok-Wing Tsui. Whole genome sequencing data of 1110 Mycobacterium tuberculosis isolates identifies insertions and deletions associated with drug resistance. BMC genomics, 2018, 19:1-10.

4. Zhiyuan Yang, and Fuyan Hu. Investigation of gene evolution in vertebrate genome reveals novel insights into spine study. Gene, 2018, 679: 360-368.

5. Fuyan Hu, Yuxuan Zhou, Qing Wang, Zhiyuan Yang, Yu Shi, and Qingjia Chi. Gene expression classification of lung adenocarcinoma into molecular subtypes. IEEE/ACM transactions on computational biology and bioinformatics, 2019, 17(4): 1187-1197.

6. Zhiyuan Yang, and Ying Wu. Improved annotation of Lutzomyia longipalpis genome using bioinformatics analysis. PeerJ, 2019, 7: e7862.

7. Zhiyuan Yang, Xi Zeng, and Stephen Kwok-Wing Tsui. Investigating function roles of hypothetical proteins encoded by the Mycobacterium tuberculosis H37Rv genome. BMC genomics, 2019, 20: 1-10.

8. Zhiyuan Yang, Angel Tsz‐Yau Wan, Xiao‐Yu Liu, Qing Xiong, Zhi‐Gang Liu, and Stephen Kwok‐Wing Tsui. Identification, functional annotation, and stability analysis of miRNA in Dermatophagoides pteronyssinus. Allergy, 2020, 75: 1237-1240.

9. Zhiyuan Yang, Jinpao Hou, Mingdao Mu, and Shang Ying Wu. Subtractive proteomics and systems biology analysis revealed novel drug targets in Mycoplasma genitalium strain G37. Microbial pathogenesis, 2020, 145: 104231.

10. Zhiyuan Yang, Mingqiang Wang, Xi Zeng, Angel Tsz-Yau Wan, and Stephen Kwok-Wing Tsui. In silico analysis of proteins and microRNAs related to human African trypanosomiasis in tsetse fly. Computational Biology and Chemistry, 2020, 88: 107347.

11. Fuyan Hu, Qing Wang, Zhiyuan Yang, Zeng Zhang, and Xiaoping Liu. Network-based identification of biomarkers for colon adenocarcinoma. BMC cancer 20 (2020): 1-15.

12. Zhiyuan Yang, Hongqi Wang(指导的本科生), Zixin Zhao, Yunlong Jin, Zhengnan Zhang, Jiayi Tan, and Fuyan Hu. Gene–microRNA network analysis identified seven hub genes in association with progression and prognosis in non-small cell lung cancer. Genes, 2022, 13(8): 1480.

13. Zhiyuan Yang, Mai Shi, Xiaoli Zhang, and Danyu Yao. Genome-Wide Screening for Pathogenic Proteins and microRNAs Associated with Parasite–Host Interactions in Trypanosoma brucei. Insects, 2022, 13(11): 968.

14. Fuyan Hu, Bifeng Chen, Qing Wang, Zhiyuan Yang, and Man Chu. Multi-omics data analysis reveals the biological implications of alternative splicing events in lung adenocarcinoma. Journal of Bioinformatics and Computational Biology, 2023, 21(4): 2350020.

15. Zhiyuan Yang, Yuanyuan Qi(指导的本科生), Yijing Wang(本科生), Xiangyun Chen(本科生), Yuerong Wang(本科生), and Xiaoli Zhang. Identifying Network Biomarkers in Early Diagnosis of Hepatocellular Carcinoma via miRNA–Gene Interaction Network Analysis. Current Issues in Molecular Biology, 2023, 45(9): 7374-7387.

16. Weiye Qian, and Zhiyuan Yang ^*. Identification of cell-type-specific genes in multimodal single-cell data using deep neural network algorithm. Computers in Biology and Medicine, 2023, 166: 107498.

17. Weiye Qian, Nan Ma, Xi Zeng, Mai Shi, Mingqiang Wang, Zhiyuan Yang ^*, and Stephen Kwok-Wing Tsui ^*. Identification of novel single nucleotide variants in the drug resistance mechanism of Mycobacterium tuberculosis isolates by whole-genome analysis. BMC genomics, 2024, 25(1): 478.

18. Jinyang Qian(指导的本科生), Pengfei Jin(本科生), Yueyue Yang(本科生), Nan Ma, Zhiyuan Yang ^*, and Xiaoli Zhang. Protein function annotation and virulence factor identification of Klebsiella pneumoniae genome by multiple machine learning models. Microbial Pathogenesis, 2024, 193: 106727.(唯一通讯作者)

19. Mingdao Mu, Haoyu Sun, Shuyan Geng, Tianxiang Xu, Chuanyao Sun, Zixu Zhang, Sibie Meng Moyi Li, An Liu, Zhiyuan Yang ^*, and Wei Xie ^*. Neurexin-3 in the paraventricular nucleus of the hypothalamus regulates body weight and glucose homeostasis independently of food intake. Molecular Brain, 2024, 17(1): 49.

20. Jiawei Sun, Hongbo Yin, Chenxiao Ju, Yongheng Wang, and Zhiyuan Yang ^*. DTVF: A User-Friendly Tool for Virulence Factor Prediction Based on ProtT5 and Deep Transfer Learning Models. Genes, 15(9): 1170.

21. Weiye Qian, Jiawei Sun, Tianyi Liu, Zhiyuan Yang ^*, and Stephen Kwok-Wing Tsui ^*. sRNAdeep: a novel tool for bacterial sRNA prediction based on DistilBERT encoding mode and deep learning algorithms. BMC genomics, 2024, 25(1): 1021.

22. Jing Huang(指导的本科生), Yichun Gao(本科生), Jipan Liu(本科生), Zhiyuan Yang ^*, and Xiaoli Zhang. System biology analysis of miRNA-gene interaction network reveals novel drug targets in breast cancer. Nucleosides, Nucleotides & Nucleic Acids, 2024, 12: 1-16. (唯一通讯作者)

23. Caoli Zhu, Yicheng Yan, Yaning Feng, Jiawei Sun, Mingdao Mu ^*, and Zhiyuan Yang ^*. Genome-Wide Analysis Reveals Key Genes and MicroRNAs Related to Pathogenic Mechanism in Wuchereria bancrofti. Pathogens, 2024, 13(12): 1088.

24. Yongheng Wang, Tianyi Liu, Shang Ying Wu, Jiawei Sun, Mingdao Mu ^*, and Zhiyuan Yang ^*. Skin Microbiota, Circulating Metabolic Biomarker, Epilepsy: A Mendelian Randomization Analysis. Current Issues in Molecular Biology, 2024, 46(12): 13937-13950.

25. Shuyan Geng, Zixu Zhang, Xing Liu, Haoyu Sun, Tianxiang Xu, Chuanyao Sun, Shengru Hu, An Liu, Zhiyuan Yang ^*, Wei Xie ^*, Mingdao Mu ^*. Intermittent Social Isolation Enhances Social Investigation but Impairs Social Memory in Adult Male Mice. Physiology & Behavior, 2025, 291: 114788.

26. Jiawei Sun, Weiye Qian, Nan Ma, Wenjia Liu and Zhiyuan Yang ^*, Datt-AVP: Antiviral Peptide Prediction by Sequence-Based Dual Channel Network with Attention Mechanism, IEEE/ACM transactions on computational biology and bioinformatics, 2025.