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2020 – today
- 2025
[j9]Yan Liu
, Chen Li, Long-Chen Shen, He Yan, Guo Wei, Robin B. Gasser, Xiaohua Hu, Jiangning Song, Dong-Jun Yu:
scRCA: A Siamese network-based pipeline for annotating cell types using noisy single-cell RNA-seq reference data. Comput. Biol. Medicine 190: 110068 (2025)- [j8]Long-Chen Shen, Yan Liu, Zi Liu, Yumeng Zhang, Zhikang Wang, Yuming Guo, Jamie Rossjohn, Jiangning Song, Dong-Jun Yu:
Supervised contrastive learning enhances MHC-II peptide binding affinity prediction. Expert Syst. Appl. 269: 126463 (2025) - 2024
- [j7]Shuo Li, Yan Liu, Long-Chen Shen, He Yan, Jiangning Song, Dong-Jun Yu:
GMFGRN: a matrix factorization and graph neural network approach for gene regulatory network inference. Briefings Bioinform. 25(2) (2024) - 2023
- [j6]Yan Liu, Guo Wei, Chen Li, Long-Chen Shen, Robin B. Gasser, Jiangning Song, Dijun Chen, Dong-Jun Yu:
TripletCell: a deep metric learning framework for accurate annotation of cell types at the single-cell level. Briefings Bioinform. 24(3) (2023) - [j5]Zi Liu, Yi-Heng Zhu, Long-Chen Shen, Xuan Xiao, Wangren Qiu, Dong-Jun Yu:
Integrating unsupervised language model with multi-view multiple sequence alignments for high-accuracy inter-chain contact prediction. Comput. Biol. Medicine 166: 107529 (2023) - [j4]Yan Liu, He Yan, Long-Chen Shen, Dong-Jun Yu:
Learning Cell Annotation under Multiple Reference Datasets by Multisource Domain Adaptation. J. Chem. Inf. Model. 63(1): 397-405 (2023) - 2022
- [j3]Ke Han, Long-Chen Shen, Yi-Heng Zhu, Jian Xu, Jiangning Song, Dong-Jun Yu:
MAResNet: predicting transcription factor binding sites by combining multi-scale bottom-up and top-down attention and residual network. Briefings Bioinform. 23(1) (2022) - 2021
- [j2]Long-Chen Shen, Yan Liu, Jiangning Song, Dong-Jun Yu:
SAResNet: self-attention residual network for predicting DNA-protein binding. Briefings Bioinform. 22(5) (2021) - [j1]Yan Liu, Ke Han, Yi-Heng Zhu, Ying Zhang, Long-Chen Shen, Jiangning Song, Dong-Jun Yu:
Improving protein fold recognition using triplet network and ensemble deep learning. Briefings Bioinform. 22(6) (2021)
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