| High-order convolutional neural network architecture for predicting DNA-protein binding sites Q Zhang, L Zhu, DS Huang IEEE/ACM transactions on computational biology and bioinformatics 16 (4 …, 2018 | 97 | 2018 |
| A survey on deep learning in DNA/RNA motif mining Y He, Z Shen, Q Zhang, S Wang, DS Huang Briefings in Bioinformatics 22 (4), bbaa229, 2021 | 85 | 2021 |
| Weakly-supervised convolutional neural network architecture for predicting protein-DNA binding Q Zhang, L Zhu, W Bao, DS Huang IEEE/ACM transactions on computational biology and bioinformatics 17 (2 …, 2018 | 74 | 2018 |
| Modeling in-vivo protein-DNA binding by combining multiple-instance learning with a hybrid deep neural network Q Zhang, Z Shen, DS Huang Scientific reports 9 (1), 8484, 2019 | 69 | 2019 |
| Predicting in-vitro Transcription Factor Binding Sites Using DNA Sequence + Shape Q Zhang, Z Shen, DS Huang IEEE/ACM transactions on computational biology and bioinformatics 18 (2 …, 2019 | 60 | 2019 |
| Locating transcription factor binding sites by fully convolutional neural network Q Zhang, S Wang, Z Chen, Y He, Q Liu, DS Huang Briefings in bioinformatics 22 (5), bbaa435, 2021 | 42 | 2021 |
| Predicting transcription factor binding sites using DNA shape features based on shared hybrid deep learning architecture S Wang, Q Zhang, Z Shen, Y He, ZH Chen, J Li, DS Huang Molecular Therapy-Nucleic Acids 24, 154-163, 2021 | 38 | 2021 |
| A deep learning model for RNA-protein binding preference prediction based on hierarchical LSTM and attention network Z Shen, Q Zhang, K Han, DS Huang IEEE/ACM Transactions on Computational Biology and Bioinformatics 19 (2 …, 2020 | 38 | 2020 |
| Prediction of Back-splicing sites for CircRNA formation based on convolutional neural networks Z Shen, YL Shao, W Liu, Q Zhang, L Yuan BMC genomics 23 (1), 581, 2022 | 18 | 2022 |
| Base-resolution prediction of transcription factor binding signals by a deep learning framework Q Zhang, Y He, S Wang, Z Chen, Z Guo, Z Cui, Q Liu, DS Huang PLoS computational biology 18 (3), e1009941, 2022 | 17 | 2022 |
| Path planning based on firefly algorithm and Bezier curve B Li, L Liu, Q Zhang, D Lv, Y Zhang, J Zhang, X Shi 2014 IEEE international conference on information and automation (ICIA), 630-633, 2014 | 16 | 2014 |
| Multi-scale capsule network for predicting DNA-protein binding sites Q Zhang, W Yu, K Han, AK Nandi, DS Huang IEEE/ACM Transactions on Computational Biology and Bioinformatics 18 (5 …, 2020 | 15 | 2020 |
| Data clustering using multivariant optimization algorithm QH Zhang, BL Li, YJ Liu, L Gao, LJ Liu, XL Shi International Journal of Machine Learning and Cybernetics 7, 773-782, 2016 | 12 | 2016 |
| FCNGRU: locating transcription factor binding sites by combing fully convolutional neural network with gated recurrent unit S Wang, Y He, Z Chen, Q Zhang IEEE Journal of Biomedical and Health Informatics 26 (4), 1883-1890, 2021 | 11 | 2021 |
| Computational prediction and characterization of cell-type-specific and shared binding sites Q Zhang, P Teng, S Wang, Y He, Z Cui, Z Guo, Y Liu, C Yuan, Q Liu, ... Bioinformatics 39 (1), btac798, 2023 | 10 | 2023 |
| Multivariant optimization algorithm for multimodal optimization BL Li, XL Shi, CX Gou, TS Li, YJ Liu, LJ Liu, QH Zhang Applied Mechanics and Materials 483, 453-457, 2014 | 10 | 2014 |
| RMSCNN: a random multi-scale convolutional neural network for marine microbial bacteriocins identification Z Cui, ZH Chen, QH Zhang, V Gribova, VF Filaretov, DS Huang IEEE/ACM Transactions on Computational Biology and Bioinformatics 19 (6 …, 2021 | 9 | 2021 |
| iCircDA-NEAE: Accelerated attribute network embedding and dynamic convolutional autoencoder for circRNA-disease associations prediction L Yuan, J Zhao, Z Shen, Q Zhang, Y Geng, CH Zheng, DS Huang PLoS Computational Biology 19 (8), e1011344, 2023 | 8 | 2023 |
| Motif discovery via convolutional networks with K-mer embedding D Wang, Q Zhang, CA Yuan, X Qin, ZK Huang, L Shang Intelligent Computing Theories and Application: 15th International …, 2019 | 8 | 2019 |
| Predicting the sequence specificities of DNA-binding proteins by DNA fine-tuned language model with decaying learning rates Y He, Q Zhang, S Wang, Z Chen, Z Cui, ZH Guo, DS Huang IEEE/ACM Transactions on Computational Biology and Bioinformatics 20 (1 …, 2022 | 5 | 2022 |
