| iCircRBP-DHN: identification of circRNA-RBP interaction sites using deep hierarchical network Y Yang, Z Hou, Z Ma, X Li, KC Wong Briefings in Bioinformatics 22 (4), bbaa274, 2021 | 65 | 2021 |
| Learning the protein language of proteome-wide protein-protein binding sites via explainable ensemble deep learning Z Hou, Y Yang, Z Ma, K Wong, X Li Communications Biology 6 (1), 73, 2023 | 35 | 2023 |
| Topological identification and interpretation for single-cell gene regulation elucidation across multiple platforms using scMGCA Z Yu, Y Su, Y Lu, Y Yang, F Wang, S Zhang, Y Chang, KC Wong, X Li Nature Communications 14 (1), 400, 2023 | 29 | 2023 |
| HCRNet: high-throughput circRNA-binding event identification from CLIP-seq data using deep temporal convolutional network Y Yang, Z Hou, Y Wang, H Ma, P Sun, Z Ma, KC Wong, X Li Briefings in Bioinformatics 23 (2), bbac027, 2022 | 24 | 2022 |
| Dynamic characterization and interpretation for protein-RNA interactions across diverse cellular conditions using HDRNet H Zhu, Y Yang, Y Wang, F Wang, Y Huang, Y Chang, K Wong, X Li Nature Communications 14 (1), 6824, 2023 | 20 | 2023 |
| iDeepSubMito: identification of protein submitochondrial localization with deep learning Z Hou, Y Yang, H Li, K Wong, X Li Briefings in Bioinformatics 22 (6), bbab288, 2021 | 13 | 2021 |
| EDCNN: identification of genome-wide RNA-binding proteins using evolutionary deep convolutional neural network Y Wang, Y Yang, Z Ma, KC Wong, X Li Bioinformatics 38 (3), 678-686, 2022 | 11 | 2022 |
| Deciphering 3'UTR Mediated Gene Regulation Using Interpretable Deep Representation Learning Y Yang, G Li, K Pang, W Cao, Z Zhang, X Li Advanced Science, 2407013, 2024 | 9 | 2024 |
| Genome-wide identification and characterization of DNA enhancers with a stacked multivariate fusion framework Y Wang, Z Hou, Y Yang, K Wong, X Li PLoS Computational Biology 18 (12), e1010779, 2022 | 9 | 2022 |
| Colorectal cancer subtype identification from differential gene expression levels using minimalist deep learning S Li, Y Yang, X Wang, J Li, J Yu, X Li, KC Wong BioData mining 15 (1), 12, 2022 | 7 | 2022 |
| Reliable Identification and Interpretation of Single‐Cell Molecular Heterogeneity and Transcriptional Regulation using Dynamic Ensemble Pruning Y Fan, Y Wang, F Wang, L Huang, Y Yang, KC Wong, X Li Advanced Science 10 (22), 2205442, 2023 | 4 | 2023 |
| Identification of haploinsufficient genes from epigenomic data using deep forest Y Yang, S Li, Y Wang, Z Ma, KC Wong, X Li Briefings in Bioinformatics 22 (5), bbaa393, 2021 | 4 | 2021 |
| Distribution‐Agnostic Deep Learning Enables Accurate Single‐Cell Data Recovery and Transcriptional Regulation Interpretation Y Su, Z Yu, Y Yang, KC Wong, X Li Advanced Science 11 (16), 2307280, 2024 | 3 | 2024 |
| SOFB is a comprehensive ensemble deep learning approach for elucidating and characterizing protein-nucleic-acid-binding residues B Zhang, Z Hou, Y Yang, K Wong, H Zhu, X Li Communications Biology 7 (1), 679, 2024 | 2 | 2024 |
| An Improved Topology Prediction of Alpha-Helical Transmembrane Protein Based on Deep Multi-Scale Convolutional Neural Network Y Yang, J Yu, Z Liu, X Wang, H Wang, Z Ma, D Xu IEEE/ACM Transactions on Computational Biology and Bioinformatics 19 (1 …, 2020 | 2 | 2020 |