| RNA-Puzzles Round III: 3D RNA structure prediction of five riboswitches and one ribozyme Z Miao, RW Adamiak, M Antczak, RT Batey, AJ Becka, M Biesiada, ... Rna 23 (5), 655-672, 2017 | 173 | 2017 |
| RNA-Puzzles Round II: assessment of RNA structure prediction programs applied to three large RNA structures Z Miao, RW Adamiak, MF Blanchet, M Boniecki, JM Bujnicki, SJ Chen, ... Rna 21 (6), 1066-1084, 2015 | 171 | 2015 |
| Optimization of RNA 3D structure prediction using evolutionary restraints of nucleotide–nucleotide interactions from direct coupling analysis J Wang, K Mao, Y Zhao, C Zeng, J Xiang, Y Zhang, Y Xiao Nucleic acids research 45 (11), 6299-6309, 2017 | 105 | 2017 |
| Mapping allosteric communications within individual proteins J Wang, A Jain, LR McDonald, C Gambogi, AL Lee, NV Dokholyan Nature communications 11 (1), 3862, 2020 | 99 | 2020 |
| RNA-Puzzles Round IV: 3D structure predictions of four ribozymes and two aptamers Z Miao, RW Adamiak, M Antczak, MJ Boniecki, J Bujnicki, SJ Chen, ... RNA 26 (8), 982-995, 2020 | 92 | 2020 |
| 3dRNA v2. 0: an updated web server for RNA 3D structure prediction J Wang, J Wang, Y Huang, Y Xiao International journal of molecular sciences 20 (17), 4116, 2019 | 86 | 2019 |
| 3dRNAscore: a distance and torsion angle dependent evaluation function of 3D RNA structures J Wang, Y Zhao, C Zhu, Y Xiao Nucleic acids research 43 (10), e63-e63, 2015 | 86 | 2015 |
| RNA–DNA fibers and polygons with controlled immunorecognition activate RNAi, FRET and transcriptional regulation of NF-κB in human cells W Ke, E Hong, RF Saito, MC Rangel, J Wang, M Viard, M Richardson, ... Nucleic Acids Research, 2018 | 77 | 2018 |
| MedusaDock 2.0: Efficient and Accurate Protein-Ligand Docking With Constraints J Wang, NV Dokholyan Journal of Chemical Information and Modeling, 2019 | 47 | 2019 |
| AlphaFold illuminates half of the dark human proteins JL Binder, J Berendzen, AO Stevens, Y He, J Wang, NV Dokholyan, ... Current Opinion in Structural Biology 74, 102372, 2022 | 32 | 2022 |
| Using 3dRNA for RNA 3‐D Structure Prediction and Evaluation J Wang, Y Xiao Current Protocols in bioinformatics 57 (1), 5.9. 1-5.9. 12, 2017 | 24 | 2017 |
| Drug discovery approaches using quantum machine learning J Li, M Alam, MS Congzhou, J Wang, NV Dokholyan, S Ghosh 2021 58th ACM/IEEE Design Automation Conference (DAC), 1356-1359, 2021 | 23 | 2021 |
| Modifications to the framework regions eliminate chimeric antigen receptor tonic signaling E Landoni, G Fucá, J Wang, VR Chirasani, Z Yao, E Dukhovlinova, ... Cancer immunology research 9 (4), 441-453, 2021 | 23 | 2021 |
| Direct mapping of higher-order RNA interactions by SHAPE-JuMP T Christy, C Giannetti, G Houlihan, M Smola, G Rice, J Wang, ... Biochemistry, 2021 | 22 | 2021 |
| Predicting protein–ligand docking structure with graph neural network H Jiang, J Wang, W Cong, Y Huang, M Ramezani, A Sarma, ... Journal of chemical information and modeling 62 (12), 2923-2932, 2022 | 21 | 2022 |
| Guiding conventional Protein–Ligand docking software with convolutional neural networks H Jiang, M Fan, J Wang, A Sarma, S Mohanty, NV Dokholyan, M Mahdavi, ... Journal of Chemical Information and Modeling 60 (10), 4594-4602, 2020 | 18 | 2020 |
| Various miRNAs compensate the role of miR-122 on HCV replication C Ono, T Fukuhara, S Li, J Wang, A Sato, T Izumi, Y Fauzyah, ... PLoS pathogens 16 (6), e1008308, 2020 | 16 | 2020 |
| GPU-Accelerated Flexible Molecular Docking M Fan, J Wang, H Jiang, Y Feng, M Mahdavi, K Madduri, MT Kandemir, ... The Journal of Physical Chemistry B, 2021 | 15 | 2021 |
| Limits in accuracy and a strategy of RNA structure prediction using experimental information J Wang, B Williams, VR Chirasani, A Krokhotin, R Das, NV Dokholyan. Nucleic acids research 47 (11), 5563–5572, 2019 | 15 | 2019 |
| Yuel: Improving the Generalizability of Structure-Free Compound–Protein Interaction Prediction J Wang, NV Dokholyan Journal of chemical information and modeling 62 (3), 463-471, 2022 | 14 | 2022 |
