| Toward better drug discovery with knowledge graph X Zeng, X Tu, Y Liu, X Fu, Y Su Current opinion in structural biology 72, 114-126, 2022 | 201 | 2022 |
| StackCPPred: a stacking and pairwise energy content-based prediction of cell-penetrating peptides and their uptake efficiency X Fu, L Cai, X Zeng, Q Zou Bioinformatics 36 (10), 3028-3034, 2020 | 120 | 2020 |
| Drug repositioning based on the heterogeneous information fusion graph convolutional network L Cai, C Lu, J Xu, Y Meng, P Wang, X Fu, X Zeng, Y Su Briefings in bioinformatics 22 (6), bbab319, 2021 | 112 | 2021 |
| iEnhancer-XG: interpretable sequence-based enhancers and their strength predictor L Cai, X Ren, X Fu, L Peng, M Gao, X Zeng Bioinformatics 37 (8), 1060-1067, 2021 | 75 | 2021 |
| ITP-Pred: an interpretable method for predicting, therapeutic peptides with fused features low-dimension representation L Cai, L Wang, X Fu, C Xia, X Zeng, Q Zou Briefings in Bioinformatics 22 (4), bbaa367, 2021 | 67 | 2021 |
| Improved DNA-binding protein identification by incorporating evolutionary information into the Chou’s PseAAC X Fu, W Zhu, B Liao, L Cai, L Peng, J Yang IEEE Access 6, 66545-66556, 2018 | 56 | 2018 |
| RNMFLP: predicting circRNA–disease associations based on robust nonnegative matrix factorization and label propagation L Peng, C Yang, L Huang, X Chen, X Fu, W Liu Briefings in bioinformatics 23 (5), bbac155, 2022 | 47 | 2022 |
| Improved pre-miRNAs identification through mutual information of pre-miRNA sequences and structures X Fu, W Zhu, L Cai, B Liao, L Peng, Y Chen, J Yang Frontiers in genetics 10, 119, 2019 | 43 | 2019 |
| DAESTB: inferring associations of small molecule–miRNA via a scalable tree boosting model based on deep autoencoder L Peng, Y Tu, L Huang, Y Li, X Fu, X Chen Briefings in Bioinformatics 23 (6), bbac478, 2022 | 34 | 2022 |
| MPCLCDA: predicting circRNA–disease associations by using automatically selected meta-path and contrastive learning W Liu, T Tang, X Lu, X Fu, Y Yang, L Peng Briefings in Bioinformatics 24 (4), bbad227, 2023 | 26 | 2023 |
| Pretraining model for biological sequence data B Song, Z Li, X Lin, J Wang, T Wang, X Fu Briefings in functional genomics 20 (3), 181-195, 2021 | 26 | 2021 |
| Prediction of protein subcellular localization based on fusion of multi-view features B Li, L Cai, B Liao, X Fu, P Bing, J Yang Molecules 24 (5), 919, 2019 | 22 | 2019 |
| Joint masking and self-supervised strategies for inferring small molecule-miRNA associations Z Zhou, L Zhuo, X Fu, J Lv, Q Zou, R Qi Molecular Therapy-Nucleic Acids 35 (1), 2024 | 21 | 2024 |
| Joint deep autoencoder and subgraph augmentation for inferring microbial responses to drugs Z Zhou, L Zhuo, X Fu, Q Zou Briefings in Bioinformatics 25 (1), bbad483, 2024 | 19 | 2024 |
| NSCGRN: a network structure control method for gene regulatory network inference W Liu, X Sun, L Yang, K Li, Y Yang, X Fu Briefings in bioinformatics 23 (5), bbac156, 2022 | 18 | 2022 |
| Improved prediction of cell-penetrating peptides via effective orchestrating amino acid composition feature representation X Fu, L Ke, L Cai, X Chen, X Ren, M Gao IEEE Access 7, 163547-163555, 2019 | 16 | 2019 |
| NSRGRN: a network structure refinement method for gene regulatory network inference W Liu, Y Yang, X Lu, X Fu, R Sun, L Yang, L Peng Briefings in Bioinformatics 24 (3), bbad129, 2023 | 15 | 2023 |
| Diff-AMP: tailored designed antimicrobial peptide framework with all-in-one generation, identification, prediction and optimization R Wang, T Wang, L Zhuo, J Wei, X Fu, Q Zou, X Yao Briefings in Bioinformatics 25 (2), bbae078, 2024 | 13 | 2024 |
| Headtailtransfer: an efficient sampling method to improve the performance of graph neural network method in predicting sparse ncrna–protein interactions J Wei, L Zhuo, S Pan, X Lian, X Yao, X Fu Computers in Biology and Medicine 157, 106783, 2023 | 12 | 2023 |
| GAM-MDR: probing miRNA–drug resistance using a graph autoencoder based on random path masking Z Zhou, Z Du, X Jiang, L Zhuo, Y Xu, X Fu, M Liu, Q Zou Briefings in Functional Genomics, elae005, 2024 | 11 | 2024 |
