| The lncLocator: a subcellular localization predictor for long non-coding RNAs based on a stacked ensemble classifier Z Cao*, X Pan*, Y Yang*, Y Huang, HB Shen Bioinformatics, 2018 | 356 | 2018 |
| Prediction of RNA-protein sequence and structure binding preferences using deep convolutional and recurrent neural networks X Pan, P Rijnbeek, J Yan, HB Shen BMC Genomics 19, 511, 2018 | 250 | 2018 |
| Large-Scale prediction of human protein− protein interactions from amino acid sequence based on latent topic features XY Pan, YN Zhang, HB Shen Journal of proteome research 9 (10), 4992-5001, 2010 | 204 | 2010 |
| RNA-protein binding motifs mining with a new hybrid deep learning based cross-domain knowledge integration approach X Pan, HB Shen BMC bioinformatics 18, 1-14, 2017 | 183 | 2017 |
| Transcriptomic landscape of lncRNAs in inflammatory bowel disease AH Mirza, CHB Berthelsen, SE Seemann, X Pan, KS Frederiksen, ... Genome medicine 7, 1-22, 2015 | 181 | 2015 |
| Predicting RNA–protein binding sites and motifs through combining local and global deep convolutional neural networks X Pan, HB Shen Bioinformatics 34 (20), 3427-3436, 2018 | 176 | 2018 |
| IPMiner: hidden ncRNA-protein interaction sequential pattern mining with stacked autoencoder for accurate computational prediction X Pan, YX Fan, J Yan, HB Shen BMC Genomics 17 (1), 582, 2016 | 139 | 2016 |
| Lentiviral delivery of co-packaged Cas9 mRNA and a Vegfa-targeting guide RNA prevents wet age-related macular degeneration in mice S Ling, S Yang, X Hu, D Yin, Y Dai, X Qian, D Wang, X Pan, J Hong, ... Nature Biomedical Engineering, 1-13, 2021 | 130 | 2021 |
| Cell clustering for spatial transcriptomics data with graph neural networks J Li, S Chen, X Pan, Y Yuan, HB Shen Nature Computational Science 2 (6), 399-408, 2022 | 108 | 2022 |
| PredcircRNA: computational classification of circular RNA from other long non-coding RNA using hybrid features X Pan, K Xiong Molecular Biosystems 11 (8), 2219-2226, 2015 | 89 | 2015 |
| GraphBind: protein structural context embedded rules learned by hierarchical graph neural networks for recognizing nucleic-acid-binding residues Y Xia, CQ Xia, X Pan*, HB Shen* Nucleic acids research 49 (9), e51-e51, 2021 | 88 | 2021 |
| Gene expression differences among different MSI statuses in colorectal cancer L Chen*, X Pan*, XH Hu*, YH Zhang, SP Wang, T Huang, YD Cai International journal of cancer, 2018 | 87 | 2018 |
| Robust prediction of B-factor profile from sequence using two-stage SVR based on random forest feature selection XY Pan, HB Shen Protein and peptide letters 16 (12), 1447-1454, 2009 | 78 | 2009 |
| CRIP: predicting circRNA-RBP interaction sites using a codon-based encoding and hybrid deep neural networks K Zhang*, X Pan*, Y Yang, HB Shen RNA, rna. 070565.119, 2019 | 74* | 2019 |
| Identification of the copy number variant biomarkers for breast cancer subtypes X Pan, XH Hu, YH Zhang, L Chen, LC Zhu, SB Wan, T Huang, YD Cai Molecular Genetics and Genomics 294, 95-110, 2019 | 73 | 2019 |
| Learning distributed representations of RNA sequences and its application for predicting RNA-protein binding sites with a convolutional neural network X Pan, HB Shen Neurocomputing 305, 51-58, 2018 | 70 | 2018 |
| lncLocator 2.0: a cell-line-specific subcellular localization predictor for long non-coding RNAs with interpretable deep learning Y Lin, X Pan*, HB Shen* Bioinformatics, 2021 | 68 | 2021 |
| RAIN: RNA-protein Association and Interaction Networks. JG A Junge, JC Refsgaard, C Garde, X Pan, A Santos, F Alkan, C Anthon, C von ... Database: the journal of biological databases and curation 2017, 2017 | 68* | 2017 |
| Tissue expression difference between mRNAs and lncRNAs L Chen, YH Zhang, X Pan, M Liu, S Wang, T Huang, YD Cai International journal of molecular sciences 19 (11), 3416, 2018 | 66 | 2018 |
| Recent methodology progress of deep learning for RNA–protein interaction prediction X Pan, Y Yang, CQ Xia, AH Mirza, HB Shen Wiley Interdisciplinary Reviews: RNA 10 (6), e1544, 2019 | 65 | 2019 |
Yang YangDepartment of Computer Science, Shanghai Jiao Tong UniversityVerified email at cs.sjtu.edu.cn
