| RNA secondary structure prediction using an ensemble of two-dimensional deep neural networks and transfer learning J Singh, J Hanson, K Paliwal, Y Zhou Nature communications 10 (1), 5407, 2019 | 364 | 2019 |
| Single‐sequence‐based prediction of protein secondary structures and solvent accessibility by deep whole‐sequence learning R Heffernan, K Paliwal, J Lyons, J Singh, Y Yang, Y Zhou Journal of computational chemistry 39 (26), 2210-2216, 2018 | 112 | 2018 |
| Improved RNA secondary structure and tertiary base-pairing prediction using evolutionary profile, mutational coupling and two-dimensional transfer learning J Singh, K Paliwal, T Zhang, J Singh, T Litfin, Y Zhou Bioinformatics 37 (17), 2589-2600, 2021 | 74 | 2021 |
| SPOT-Contact-LM: improving single-sequence-based prediction of protein contact map using a transformer language model J Singh, T Litfin, J Singh, K Paliwal, Y Zhou Bioinformatics 38 (7), 1888-1894, 2022 | 45 | 2022 |
| Multiple sequence alignment-based RNA language model and its application to structural inference Y Zhang, M Lang, J Jiang, Z Gao, F Xu, T Litfin, K Chen, J Singh, X Huang, ... Nucleic Acids Research 52 (1), e3-e3, 2024 | 44 | 2024 |
| Reaching alignment-profile-based accuracy in predicting protein secondary and tertiary structural properties without alignment J Singh, K Paliwal, T Litfin, J Singh, Y Zhou Scientific reports 12 (1), 7607, 2022 | 43 | 2022 |
| SPOT-1D-Single: improving the single-sequence-based prediction of protein secondary structure, backbone angles, solvent accessibility and half-sphere exposures using a large … J Singh, T Litfin, K Paliwal, J Singh, AK Hanumanthappa, Y Zhou Bioinformatics 37 (20), 3464-3472, 2021 | 43 | 2021 |
| RNAcmap: a fully automatic pipeline for predicting contact maps of RNAs by evolutionary coupling analysis T Zhang, J Singh, T Litfin, J Zhan, K Paliwal, Y Zhou Bioinformatics 37 (20), 3494-3500, 2021 | 39 | 2021 |
| Single-sequence and profile-based prediction of RNA solvent accessibility using dilated convolutional neural network AK Hanumanthappa, J Singh, K Paliwal, J Singh, Y Zhou Bioinformatics 36 (21), 5169-5176, 2020 | 30 | 2020 |
| RNA backbone torsion and pseudotorsion angle prediction using dilated convolutional neural networks J Singh, K Paliwal, J Singh, Y Zhou Journal of Chemical Information and Modeling 61 (6), 2610-2622, 2021 | 28 | 2021 |
| Probing RNA structures and functions by solvent accessibility: an overview from experimental and computational perspectives M Solayman, T Litfin, J Singh, K Paliwal, Y Zhou, J Zhan Briefings in Bioinformatics 23 (3), bbac112, 2022 | 24 | 2022 |
| Predicting RNA distance-based contact maps by integrated deep learning on physics-inferred secondary structure and evolutionary-derived mutational coupling J Singh, K Paliwal, T Litfin, J Singh, Y Zhou Bioinformatics 38 (16), 3900-3910, 2022 | 22 | 2022 |
| Detecting proline and non-proline cis isomers in protein structures from sequences using deep residual ensemble learning J Singh, J Hanson, R Heffernan, K Paliwal, Y Yang, Y Zhou Journal of chemical information and modeling 58 (9), 2033-2042, 2018 | 17 | 2018 |
| MARS and RNAcmap3: The Master Database of All Possible RNA Sequences Integrated with RNAcmap for RNA Homology Search K Chen, T Litfin, J Singh, J Zhan, Y Zhou Genomics, Proteomics & Bioinformatics 22 (1), 2024 | 12* | 2024 |
| Improved RNA homology detection and alignment by automatic iterative search in an expanded database J Singh, K Paliwal, J Singh, T Litfin, Y Zhou bioRxiv, 2022.10. 03.510702, 2022 | 4 | 2022 |
| SPOT-1D2: Improving protein secondary structure prediction using high sequence identity training set and an ensemble of recurrent and residual-convolutional neural networks J Singh, J Singh, K Paliwal, A Busch, Y Zhou 2021 IEEE Conference on Computational Intelligence in Bioinformatics and …, 2021 | 2 | 2021 |
| The effect of thin insulating layers on surface fields from a 433MHz transmitter inside the human body J Singh, HG Espinosa, DV Thiel 2018 Australian Microwave Symposium (AMS), 53-54, 2018 | 1 | 2018 |
| RNA Structure Prediction using Deep Neural Network Architectures and Improved Evolutionary Profiles J Singh Griffith University, 2022 | | 2022 |
| Detection of Cis-Trans Conformation in Protein Structure using Deep Learning Neural Network Techniques J Singh Griffith University, Brisbane, Australia, 2019 | | 2019 |
Yaoqi ZhouSenior Principal Investigator, Institute of Systems & Physical Biology, Shenzhen Bay LaboratoryVerified email at szbl.ac.cn
