主要作者文章：30篇，2020年以后21篇，其中第一作者（含并列第一）6篇，通讯作者（含共同通讯）15篇。全部文章列表链接：
https://webofscience.clarivate.cn/wos/author/record/G-9951-2017
2025
l Yang Yang, Zixuan Zheng, Yuyang Xu, Huifang Wei, Wenying Yan, BioGSF: a graph-driven semantic feature integration framework for biomedical relation extraction. Briefings in Bioinformatics, 2025, 26(1):bbaf025.(中科院大类二区，通讯作者)
l Hubo Yang, Xuefeng Zhang, Zongming Jia, He Wang, Jixiang Wu, Xuedong Wei, Yuhua Huang, Wenying Yan, Yuxin Lin. Targeting ferroptosis in prostate cancer management: molecular mechanisms, multidisciplinary strategies and translational perspectives. Journal of Translational Medicine, 2025, 23(1):166 (中科院大类二区，通讯作者)
2024 (4 Publications)
l Yang Yang, Yuwei Lu, Zixuan Zheng, Hao Wu, Yuxin Lin, Fuliang Qian, Wenying Yan. MKG-GC: A multi-task learning-based knowledge graph construction framework with personalized application to gastric cancer. Computational and Structural Biotechnology Journal, 2024, 23:1339–1347. (中科院大类二区，通讯作者)
l Jiayu Wang , Huan Zhang, Juntao Li, Xiangyu Ni, Wenying Yan, Yueqiu Chen, Tongguo Shi. Exosome-derived proteins in gastric cancer progression, drug resistance, and immune response. Cellular Molecular Biology Letters, 2024, 29(1) (中科院大类一区，共同通讯作者）
l Wenying Yan; Wentao Hu; Yidan Song; Xingyi Liu; Ziyun Zhou; Wanshi Li; Zhifei Cao; Weiwei Pei; Guangming Zhou; Guang Hu. Differential network analysis reveals the key role of the ECM-receptor pathway in α-particle-induced malignant transformation. Molecular Therapy - Nucleic Acids, 2024, 35(3): 102260 (中科院大类二区，第一作者）
l Jiahao Kuang; Zhihong Zhao; Yang Yang; Wenying Yan. PON-Tm: A sequence-based method for prediction of missense mutation effects on protein thermal stability changes. International Journal of Molecular Sciences, 2024, 25(15): 8379 (中科院大类二区，通讯作者）
2023 (7 Publications)
l Wenying Yan; Yuqi Chen; Guang Hu; Tongguo Shi; Xingyi Liu; Juntao Li; Linqing Sun; Fuliang Qian; Weichang Chen. MiR-200/183 family-mediated module biomarker for gastric cancer progression: an AI-assisted bioinformatics method with experimental functional survey. Journal of Translational Medicine, 2023, 21(1) (中科院大类二区，第一作者&共同通讯)
l Yuqi Chen; Wenying Yan; Kexi Yang; Yiting Qian; Yanjun Chen; Ruoqin Wang; Jinghan Zhu; Yuxin He; Hongya Wu; Guangbo Zhang; Tongguo Shi; Weichang Chen. Integrated multi-dimensional analysis highlights DHCR7 mutations involving in cholesterol biosynthesis and contributing therapy of gastric cancer. Journal of Experimental & Clinical Cancer Research, 2023, 42(1) (中科院大类一区，并列第一作者)
l Xingyi Liu; Bin Yang; Xinpeng Huang; Wenying Yan; Yujuan Zhang; Guang Hu. Identifying lymph node metastasis-related factors in breast cancer using differential modular and mutational structural analysis. Interdisciplinary Sciences: Computational Life Sciences, 2023, (中科院大类三区，共同通讯作者)
l Yang Yang; Yuwei Lu; Wenying Yan. A comprehensive review on knowledge graphs for complex diseases. Briefings in Bioinformatics, 2023, 24(1) (中科院大类二区，通讯作者)
l Lianjie Zeng; Yitan Lu; Wenying Yan; Yang Yang. A protein co-conservation network model characterizes mutation effects on SARS-CoV-2 spike protein. International Journal of Molecular Sciences, 2023, 24(4): 3255 (中科院大类二区，共同通讯作者)
l Jianjun Zhao; Wenying Yan; Yang Yang. DeepTP: A deep learning model for thermophilic protein prediction. International Journal of Molecular Sciences, 2023, 24(3): 2217 (中科院大类二区，共同通讯作者)
l Wanshi Li, Yongduo Yu, Guangming Zhou, Guang Hu, Bingyan Li, Hong Ma, Wenying Yan, Hailong Pei. Large-scale ORF screening based on LC-MS to discover novel lncRNA-encoded peptides responding to ionizing radiation and microgravity. Computational and Structural Biotechnology Journal. 2023, 21: 5201-5211. (中科院大类二区，共同通讯作者)
2000~2022 (8 Publications)
l Wenying Yan; Guang Hu. Structural biology meets biomolecular networks: The post-alphafold era. Current Bioinformatics, 2022, 17(6). (中科院大类四区，第一作者)
l Fan Wang; Shuqing Han; Ji Yang; Wenying Yan; Guang Hu .knowledge-guided “community network” analysis reveals the functional modules and candidate targets in non-small-cell lung cancer. Cells, 2021, 10(2): 402. (中科院大类二区，共同通讯作者)
l Ji Yang; Hongchun Li; Fan Wang; Fei Xiao; Wenying Yan; Guang Hu. Network-based target prioritization and drug candidate identification for multiple sclerosis: From analyzing “omics data” to druggability simulations. ACS Chemical Neuroscience, 2021, 12(5): 917-929. (中科院大类二区，共同通讯作者)
l Yipeng Du; Xiaoting Li; Wenying Yan; Zhaohua Zeng; Dunzheng Han; Hong Ouyang; Xiudi Pan; Bihui Luo; Bohua Zhou; Qiang Fu; Dongfeng Lu; Zheng Huang; Zhiliang Li. Deciphering the in vivo dynamic proteomics of mesenchymal stem cells in critical limb ischemia. Frontiers in Cell and Developmental Biology, 2021, 9 (中科院大类二区，并列第一作者)
l Yuqi Chen; Huang Feng; Yanlin Wu; Ruoqin Wang; Zhaoji Li; Jiajia Chen; Wenying Yan; Weichang Chen. Evaluation of plasma exosomal microRNAs as circulating biomarkers for progression and metastasis of gastric cancer. Clinical and Translational Medicine, 2020, 10(6). (中科院大类一区，共同通讯作者)
l Wenying Yan; Xingyi Liu; Yibo Wang; Shuqing Han; Fan Wang; Xin Liu; Fei Xiao; Guang Hu. Identifying drug targets in pancreatic ductal adenocarcinoma through machine learning, analyzing biomolecular networks, and structural modeling. Frontiers in Pharmacology, 2020, 11: 0-534. (中科院大类二区，第一作者)
l Wenying Yan; Chunjiang Yu; Jiajia Chen; Jianhong Zhou; Bairong Shen. ANCA: A web server for amino acid networks construction and analysis. Frontiers in Molecular Biosciences, 2020, 7: 582702. (中科院大类二区，第一作者)
l Xiujun Duan; Lihua Wang; Guobo Sun; Wenying Yan; Yang Yang. Understanding the cross-talk between host and virus in poultry from the perspectives of microRNA. Poultry Science, 2020, 99(4): 1838-1846. (中科院大类二区，共同通讯作者)
Before 2020 (9 Publications)
l Wenying Yan; Guang Hu; Zhongjie Liang; Jianhong Zhou; Yang Yang; Jiajia Chen; Bairong Shen. Node-Weighted amino acid network strategy for characterization and identification of protein functional residues. Journal of Chemical Information and Modeling, 2018, 58(9): 2024-2032. (中科院大类二区，第一作者，
JCIM封面论文)
l Wenying Yan; Daqing Zhang; Chen Shen; Zhongjie Liang; Guang Hu. Recent Advances on the Network Models in Target-based Drug Discovery.Current Topics in Medicinal Chemistry, 2018, 18(13): 1031-1043.(中科院大类四区，第一作者)
l Wenying Yan; Guang Hu; Bairong Shen. Network analysis of protein structures: the comparison of three topologies.. Current Bioinformatics, 2016, 11(4): 480-489. (中科院大类三区，第一作者)
l Wenying Yan; Laijun Qian; Jiajia Chen; Weichang Chen; Bairong Shen. Comparison of prognostic microrna biomarkers in blood and tissues for gastric cancer.Journal of Cancer, 2016, 7(1): 95-106. (中科院大类三区，第一作者)
l Wenying Yan, Wenjin Xue, Jiajia Chen, Guang Hu. Biological networks for cancer candidate biomarkers discovery. Cancer Informatics. 2016;15:1-7. (大类二区，第一作者)
l Wenying Yan; Maomin Sun; Guang Hu; Jianhong Zhou; Wenyu Zhang; Jiajia Chen; Biao Chen; Bairong Shen. Amino acid contact energy networks impact protein structure and evolution.Journal of Theoretical Biology, 2014, 355: 95-104. (中科院大类三区，第一作者)
l Wenying Yan; Jianhong Zhou; Maomin Sun; Jiajia Chen; Guang Hu; Bairong Shen. The construction of an amino acid network for understanding protein structure and function.Amino Acids, 2014, 46(6): 1419-1439. (中科院大类三区，第一作者)
l Jianhong Zhou; Wenying Yan; Guang Hu; Bairong Shen. SVR_CAF: an integrated score function for detecting native protein structures among decoys. Proteins, 2014, 82(4): 556-564. (中科院大类三区，并列第一作者)
l Jianhong Zhou; Wenying Yan; Guang Hu; Bairong Shen. Amino acid network for the discrimination of native protein structures from decoys. Current Protein and Peptide Science, 2014, 15(6): 522-528. (中科院大类三区，并列第一作者)