| SAResNet: self-attention residual network for predicting DNA-protein binding LC Shen, Y Liu, J Song, DJ Yu Briefings in Bioinformatics 22 (5), bbab101, 2021 | 30 | 2021 |
| Improving protein fold recognition using triplet network and ensemble deep learning Y Liu, K Han, YH Zhu, Y Zhang, LC Shen, J Song, DJ Yu Briefings in Bioinformatics 22 (6), bbab248, 2021 | 11 | 2021 |
| MAResNet: predicting transcription factor binding sites by combining multi-scale bottom-up and top-down attention and residual network K Han, LC Shen, YH Zhu, J Xu, J Song, DJ Yu Briefings in Bioinformatics 23 (1), bbab445, 2022 | 8 | 2022 |
| TripletCell: a deep metric learning framework for accurate annotation of cell types at the single-cell level Y Liu, G Wei, C Li, LC Shen, RB Gasser, J Song, D Chen, DJ Yu Briefings in Bioinformatics 24 (3), bbad132, 2023 | 4 | 2023 |
| Integrating unsupervised language model with multi-view multiple sequence alignments for high-accuracy inter-chain contact prediction Z Liu, YH Zhu, LC Shen, X Xiao, WR Qiu, DJ Yu Computers in Biology and Medicine 166, 107529, 2023 | 3 | 2023 |
| Learning cell annotation under multiple reference datasets by multisource domain adaptation Y Liu, H Yan, LC Shen, DJ Yu Journal of Chemical Information and Modeling 63 (1), 397-405, 2022 | 3 | 2022 |
| Improving the prediction of DNA-protein binding by integrating multi-scale dense convolutional network with fault-tolerant coding YH Yin, LC Shen, Y Jiang, S Gao, J Song, DJ Yu Analytical Biochemistry 656, 114878, 2022 | 3 | 2022 |
| scRCA: a Siamese network-based pipeline for the annotation of cell types using imperfect single-cell RNA-seq reference data Y Liu, C Li, LC Shen, H Yan, G Wei, RB Gasser, X Hu, J Song, DJ Yu bioRxiv, 2024.04. 08.588510, 2024 | | 2024 |
| GMFGRN: a matrix factorization and graph neural network approach for gene regulatory network inference S Li, Y Liu, LC Shen, H Yan, J Song, DJ Yu Briefings in Bioinformatics 25 (2), bbad529, 2024 | | 2024 |
| Supervised contrastive learning enhances MHC-II peptide binding affinity prediction LC Shen, Y Liu, Z Liu, Y Zhang, Z Wang, Y Guo, J Rossjohn, J Song, ... bioRxiv, 2023.12. 21.572942, 2023 | | 2023 |
