| RNA3DCNN: Local and global quality assessments of RNA 3D structures using 3D deep convolutional neural networks J Li, W Zhu, J Wang, W Li, S Gong, J Zhang, W Wang PLoS computational biology 14 (11), e1006514, 2018 | 64 | 2018 |
| IsRNA1: De Novo Prediction and Blind Screening of RNA 3D Structures D Zhang, J Li, SJ Chen Journal of chemical theory and computation 17 (3), 1842-1857, 2021 | 47 | 2021 |
| RNA 3D structure prediction using coarse-grained models J Li, SJ Chen Frontiers in Molecular Biosciences 8, 720937, 2021 | 34 | 2021 |
| Structure prediction of RNA loops with a probabilistic approach J Li, J Zhang, J Wang, W Li, W Wang PLoS computational biology 12 (8), e1005032, 2016 | 30 | 2016 |
| RNAJP: enhanced RNA 3D structure predictions with non-canonical interactions and global topology sampling J Li, SJ Chen Nucleic acids research 51 (7), 3341-3356, 2023 | 22 | 2023 |
| Vfold-Pipeline: a web server for RNA 3D structure prediction from sequences J Li, S Zhang, D Zhang, SJ Chen Bioinformatics 38 (16), 4042-4043, 2022 | 22 | 2022 |
| Computational pipeline for reference-free comparative analysis of RNA 3D structures applied to SARS-CoV-2 UTR models J Gumna, M Antczak, RW Adamiak, JM Bujnicki, SJ Chen, F Ding, ... International Journal of Molecular Sciences 23 (17), 9630, 2022 | 17 | 2022 |
| The three-way junction structure of the HIV-1 PBS-segment binds host enzyme important for viral infectivity Z Song, T Gremminger, G Singh, Y Cheng, J Li, L Qiu, J Ji, MJ Lange, ... Nucleic acids research 49 (10), 5925-5942, 2021 | 15 | 2021 |
| An RNA aptamer that shifts the reduction potential of metabolic cofactors JS Samuelian, TJ Gremminger, Z Song, RR Poudyal, J Li, Y Zhou, ... Nature chemical biology 18 (11), 1263-1269, 2022 | 13 | 2022 |
| Advancing RNA 3D structure prediction: Exploring hierarchical and hybrid approaches in CASP15 J Li, S Zhang, SJ Chen Proteins: Structure, Function, and Bioinformatics 91 (12), 1779-1789, 2023 | 10 | 2023 |
| Machine Learning in RNA Structure Prediction: Advances and Challenges S Zhang, J Li, SJ Chen Biophysical Journal, 2024 | 9 | 2024 |
| SHAPER: A web server for fast and accurate SHAPE reactivity prediction Y Zhou, J Li, T Hurst, SJ Chen Frontiers in Molecular Biosciences 8, 721955, 2021 | 6 | 2021 |
| An RNA scoring function for tertiary structure prediction based on multi-layer neural networks YZ Wang, J Li, S Zhang, B Huang, G Yao, J Zhang Molecular Biology 53 (1), 118-126, 2019 | 4 | 2019 |
| RNA-Puzzles Round V: blind predictions of 23 RNA structures F Bu, Y Adam, RW Adamiak, M Antczak, BRH de Aquino, NG Badepally, ... Nature methods, 1-13, 2024 | 3 | 2024 |
| smFRET-assisted RNA structure prediction J Li, NG Walter, SJ Chen Communications in information and systems 24 (3), 163, 2024 | | 2024 |
| Embracing exascale computing in nucleic acid simulations J Li, Y Zhou, SJ Chen Current Opinion in Structural Biology 87, 102847, 2024 | | 2024 |
