| Critical assessment of protein intrinsic disorder prediction M Necci, D Piovesan, SCE Tosatto Nature methods 18 (5), 472-481, 2021 | 207 | 2021 |
| Accurate prediction of protein contact maps by coupling residual two-dimensional bidirectional long short-term memory with convolutional neural networks J Hanson, K Paliwal, T Litfin, Y Yang, Y Zhou Bioinformatics 34 (23), 4039-4045, 2018 | 191 | 2018 |
| Improving prediction of protein secondary structure, backbone angles, solvent accessibility and contact numbers by using predicted contact maps and an ensemble of recurrent and … J Hanson, K Paliwal, T Litfin, Y Yang, Y Zhou Bioinformatics 35 (14), 2403-2410, 2019 | 175 | 2019 |
| SPOT-Disorder2: improved protein intrinsic disorder prediction by ensembled deep learning J Hanson, KK Paliwal, T Litfin, Y Zhou Genomics, Proteomics and Bioinformatics 17 (6), 645-656, 2019 | 124 | 2019 |
| Nucleotide sugar transporter SLC35 family structure and function B Hadley, T Litfin, CJ Day, T Haselhorst, Y Zhou, J Tiralongo Computational and structural biotechnology journal 17, 1123-1134, 2019 | 74 | 2019 |
| 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 | 54 | 2021 |
| Identifying molecular recognition features in intrinsically disordered regions of proteins by transfer learning J Hanson, T Litfin, K Paliwal, Y Zhou Bioinformatics 36 (4), 1107-1113, 2020 | 48 | 2020 |
| 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 | 34 | 2021 |
| Large expert-curated database for benchmarking document similarity detection in biomedical literature search P Brown, AC Tan, MA El-Esawi, T Liehr, O Blanck, DP Gladue, ... Database 2019, 2019 | 34 | 2019 |
| 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 | 33* | 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 | 31 | 2021 |
| 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 | 26 | 2022 |
| SPOT-ligand 2: improving structure-based virtual screening by binding-homology search on an expanded structural template library T Litfin, Y Zhou, Y Yang Bioinformatics 33 (8), 1238-1240, 2017 | 24 | 2017 |
| Getting to know your neighbor: protein structure prediction comes of age with contextual machine learning J Hanson, KK Paliwal, T Litfin, Y Yang, Y Zhou Journal of Computational Biology 27 (5), 796-814, 2020 | 20 | 2020 |
| 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 | 18 | 2022 |
| Spot-peptide: template-based prediction of peptide-binding proteins and peptide-binding sites T Litfin, Y Yang, Y Zhou Journal of chemical information and modeling 59 (2), 924-930, 2019 | 18 | 2019 |
| 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 | 17 | 2022 |
| Systematic Analysis of REBASE Identifies Numerous Type I Restriction-Modification Systems with Duplicated, Distinct hsdS Specificity Genes That Can Switch … JM Atack, C Guo, T Litfin, L Yang, PJ Blackall, Y Zhou, MP Jennings Msystems 5 (4), 10.1128/msystems. 00497-20, 2020 | 17 | 2020 |
| CAID prediction portal: a comprehensive service for predicting intrinsic disorder and binding regions in proteins A Del Conte, A Bouhraoua, M Mehdiabadi, D Clementel, AM Monzon, ... Nucleic Acids Research 51 (W1), W62-W69, 2023 | 13 | 2023 |
| YesU from Bacillus subtilis preferentially binds fucosylated glycans J Tiralongo, O Cooper, T Litfin, Y Yang, R King, J Zhan, H Zhao, N Bovin, ... Scientific reports 8 (1), 13139, 2018 | 12 | 2018 |
Yaoqi ZhouSenior Principal Investigator, Institute of Systems & Physical Biology, Shenzhen Bay LaboratoryVerified email at szbl.ac.cn
