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2020 – today
- 2024
[j12]Yi-Heng Zhu, Zi Liu, Yan Liu
, Zhiwei Ji, Dong-Jun Yu:
ULDNA: integrating unsupervised multi-source language models with LSTM-attention network for high-accuracy protein-DNA binding site prediction. Briefings Bioinform. 25(2) (2024)- 2023
- [j11]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) - 2022
- [j10]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) - [j9]Yi-Heng Zhu, Chengxin Zhang, Yan Liu, Gilbert S. Omenn, Peter L. Freddolino, Dong-Jun Yu, Yang Zhang:
TripletGO: Integrating Transcript Expression Profiles with Protein Homology Inferences for Gene Function Prediction. Genom. Proteom. Bioinform. 20(5): 1013-1027 (2022) - [j8]Yi-Heng Zhu, Chengxin Zhang, Dong-Jun Yu, Yang Zhang:
Integrating unsupervised language model with triplet neural networks for protein gene ontology prediction. PLoS Comput. Biol. 18(12): 1010793 (2022) - 2021
- [j7]Yi-Heng Zhu, Jun Hu, Fang Ge, Fuyi Li, Jiangning Song, Yang Zhang, Dong-Jun Yu:
Accurate multistage prediction of protein crystallization propensity using deep-cascade forest with sequence-based features. Briefings Bioinform. 22(3) (2021) - [j6]Yan Liu, Yi-Heng Zhu, Xiaoning Song, Jiangning Song, Dong-Jun Yu:
Why can deep convolutional neural networks improve protein fold recognition? A visual explanation by interpretation. Briefings Bioinform. 22(5) (2021) - [j5]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) - [j4]Jun Hu, Liang Rao, Yi-Heng Zhu, Gui-Jun Zhang, Dong-Jun Yu:
TargetDBP+: Enhancing the Performance of Identifying DNA-Binding Proteins via Weighted Convolutional Features. J. Chem. Inf. Model. 61(1): 505-515 (2021) - 2020
- [j3]Ming-Cai Chen, Yang Li, Yi-Heng Zhu, Fang Ge, Dong-Jun Yu:
SSCpred: Single-Sequence-Based Protein Contact Prediction Using Deep Fully Convolutional Network. J. Chem. Inf. Model. 60(6): 3295-3303 (2020) - [j2]Jun Hu, Xiaogen Zhou, Yi-Heng Zhu, Dong-Jun Yu, Gui-Jun Zhang:
TargetDBP: Accurate DNA-Binding Protein Prediction Via Sequence-Based Multi-View Feature Learning. IEEE ACM Trans. Comput. Biol. Bioinform. 17(4): 1419-1429 (2020)
2010 – 2019
- 2019
- [j1]Yi-Heng Zhu, Jun Hu, Xiaoning Song, Dong-Jun Yu:
DNAPred: Accurate Identification of DNA-Binding Sites from Protein Sequence by Ensembled Hyperplane-Distance-Based Support Vector Machines. J. Chem. Inf. Model. 59(6): 3057-3071 (2019) - [c1]Xiao-Rong Bao, Yi-Heng Zhu, Dong-Jun Yu:
DeepTF: Accurate Prediction of Transcription Factor Binding Sites by Combining Multi-scale Convolution and Long Short-Term Memory Neural Network. IScIDE (2) 2019: 126-138
Coauthor Index
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