| CellCall: integrating paired ligand–receptor and transcription factor activities for cell–cell communication Y Zhang, T Liu, X Hu, M Wang, J Wang, B Zou, P Tan, T Cui, Y Dou, ... Nucleic acids research 49 (15), 8520-8534, 2021 | 107 | 2021 |
| Application of artificial intelligence and machine learning for COVID-19 drug discovery and vaccine design H Lv, L Shi, JW Berkenpas, FY Dao, H Zulfiqar, H Ding, Y Zhang, L Yang, ... Briefings in bioinformatics 22 (6), bbab320, 2021 | 73 | 2021 |
| Cellinker: a platform of ligand–receptor interactions for intercellular communication analysis Y Zhang, T Liu, J Wang, B Zou, L Li, L Yao, K Chen, L Ning, B Wu, X Zhao, ... Bioinformatics 37 (14), 2025-2032, 2021 | 58 | 2021 |
| cncRNAdb: a manually curated resource of experimentally supported RNAs with both protein-coding and noncoding function Y Huang, J Wang, Y Zhao, H Wang, T Liu, Y Li, T Cui, W Li, Y Feng, J Luo, ... Nucleic Acids Research 49 (D1), D65-D70, 2021 | 42 | 2021 |
| RIscoper: a tool for RNA–RNA interaction extraction from the literature Y Zhang, T Liu, L Chen, J Yang, J Yin, Y Zhang, Z Yun, H Xu, L Ning, ... Bioinformatics 35 (17), 3199-3202, 2019 | 31 | 2019 |
| Distinct functional patterns of gene promoter hypomethylation and hypermethylation in cancer genomes X Shen, Z He, H Li, C Yao, Y Zhang, L He, S Li, J Huang, Z Guo Public Library of Science 7 (9), e44822, 2012 | 31 | 2012 |
| Bitter-RF: a random forest machine model for recognizing bitter peptides YF Zhang, YH Wang, ZF Gu, XR Pan, J Li, H Ding, Y Zhang, KJ Deng Frontiers in medicine 10, 1052923, 2023 | 24 | 2023 |
| PSnoD: identifying potential snoRNA-disease associations based on bounded nuclear norm regularization Z Sun, Q Huang, Y Yang, S Li, H Lv, Y Zhang, H Lin, L Ning Briefings in Bioinformatics 23 (4), bbac240, 2022 | 24 | 2022 |
| Accurately identifying hemagglutinin using sequence information and machine learning methods X Zou, L Ren, P Cai, Y Zhang, H Ding, K Deng, X Yu, H Lin, C Huang Frontiers in Medicine 10, 2023 | 19 | 2023 |
| iRice-MS: an integrated XGBoost model for detecting multitype post-translational modification sites in rice H Lv, Y Zhang, JS Wang, SS Yuan, ZJ Sun, FY Dao, ZX Guan, H Lin, ... Briefings in Bioinformatics 23 (1), bbab486, 2022 | 17 | 2022 |
| TCM2COVID: A resource of anti‐COVID‐19 traditional Chinese medicine with effects and mechanisms L Ren, Y Xu, L Ning, X Pan, Y Li, Q Zhao, B Pang, J Huang, K Deng, ... Imeta 1 (4), e42, 2022 | 13 | 2022 |
| Finding co-mutated genes and candidate cancer genes in cancer genomes by stratified false discovery rate control J Wang, Y Zhang, X Shen, J Zhu, L Zhang, J Zou, Z Guo Molecular BioSystems 7 (4), 1158-1166, 2011 | 10 | 2011 |
| MetaboliteCOVID: A manually curated database of metabolite markers for COVID-19 L Ren, L Ning, Y Yang, T Yang, X Li, S Tan, P Ge, S Li, N Luo, P Tao, ... Computers in Biology and Medicine 167, 107661, 2023 | 9 | 2023 |
| Dissecting dynamic expression of autophagy-related genes during human fetal digestive tract development via single-cell RNA sequencing P Tan, Y Ren, Y Zhang, Y Lin, T Cui, Y Huang, Y Zhang, L Ning, J Yu, ... Autophagy 15 (11), 2019-2021, 2019 | 8 | 2019 |
| Deep-STP: A Deep Learning-Based Approach to Predict Snake Toxin Proteins by Using Word Embeddings H Zulfiqar, Z Guo, RM Ahmad, Z Ahmed, P CAI, X Chen, Y Zhang, Z Shi, ... Frontiers in Medicine 10, 1291352, 2024 | 7 | 2024 |
| P450Rdb: A manually curated database of reactions catalyzed by cytochrome P450 enzymes Y Zhang, X Pan, T Shi, Z Gu, Z Yang, M Liu, Y Xu, Y Yang, L Ren, X Song, ... Journal of Advanced Research, 2023 | 7 | 2023 |
| Exploration of invasive mechanisms via global ncRNA-associated virus-host crosstalk T Liu, Y Zhang, Y Lin, Y Hu, Y Zhang, D Wang, Y Wang, L Ning Genomics 112 (2), 1643-1650, 2020 | 7 | 2020 |
| Attention is all you need: utilizing attention in AI-enabled drug discovery Y Zhang, C Liu, M Liu, T Liu, H Lin, CB Huang, L Ning Briefings in Bioinformatics 25 (1), bbad467, 2024 | 6 | 2024 |
| Viewing cancer genes from co-evolving gene modules J Zhu, H Xiao, X Shen, J Wang, J Zou, L Zhang, D Yang, W Ma, C Yao, ... Bioinformatics 26 (7), 919-924, 2010 | 5 | 2010 |
| Construction of a combined hypoxia-related genes model for hepatocellular carcinoma prognosis L Ren, X Pan, L Ning, D Gong, J Huang, K Deng, L Xie, Y Zhang Current Computer-Aided Drug Design 19 (2), 150-161, 2023 | 4 | 2023 |
