These tools will no longer be maintained as of December 31, 2024. Archived website can be found here. PubMed4Hh GitHub repository can be found here. Contact NLM Customer Service if you have questions.
164 related articles for article (PubMed ID: 39091736)
1. Single-sequence protein-RNA complex structure prediction by geometric attention-enabled pairing of biological language models. Roche R; Tarafder S; Bhattacharya D bioRxiv; 2024 Jul; ():. PubMed ID: 39091736 [TBL] [Abstract][Full Text] [Related]
2. PANDA-3D: protein function prediction based on AlphaFold models. Zhao C; Liu T; Wang Z NAR Genom Bioinform; 2024 Sep; 6(3):lqae094. PubMed ID: 39108640 [TBL] [Abstract][Full Text] [Related]
3. EquiPNAS: improved protein-nucleic acid binding site prediction using protein-language-model-informed equivariant deep graph neural networks. Roche R; Moussad B; Shuvo MH; Tarafder S; Bhattacharya D bioRxiv; 2023 Sep; ():. PubMed ID: 37745556 [TBL] [Abstract][Full Text] [Related]
4. EquiPNAS: improved protein-nucleic acid binding site prediction using protein-language-model-informed equivariant deep graph neural networks. Roche R; Moussad B; Shuvo MH; Tarafder S; Bhattacharya D Nucleic Acids Res; 2024 Mar; 52(5):e27. PubMed ID: 38281252 [TBL] [Abstract][Full Text] [Related]
5. E(3) equivariant graph neural networks for robust and accurate protein-protein interaction site prediction. Roche R; Moussad B; Shuvo MH; Bhattacharya D PLoS Comput Biol; 2023 Aug; 19(8):e1011435. PubMed ID: 37651442 [TBL] [Abstract][Full Text] [Related]
6. PIQLE: protein-protein interface quality estimation by deep graph learning of multimeric interaction geometries. Shuvo MH; Karim M; Roche R; Bhattacharya D Bioinform Adv; 2023; 3(1):vbad070. PubMed ID: 37351310 [TBL] [Abstract][Full Text] [Related]
8. Accurately identifying nucleic-acid-binding sites through geometric graph learning on language model predicted structures. Song Y; Yuan Q; Zhao H; Yang Y Brief Bioinform; 2023 Sep; 24(6):. PubMed ID: 37824738 [TBL] [Abstract][Full Text] [Related]
9. GATSol, an enhanced predictor of protein solubility through the synergy of 3D structure graph and large language modeling. Li B; Ming D BMC Bioinformatics; 2024 Jun; 25(1):204. PubMed ID: 38824535 [TBL] [Abstract][Full Text] [Related]
10. Improved RNA secondary structure and tertiary base-pairing prediction using evolutionary profile, mutational coupling and two-dimensional transfer learning. Singh J; Paliwal K; Zhang T; Singh J; Litfin T; Zhou Y Bioinformatics; 2021 Sep; 37(17):2589-2600. PubMed ID: 33704363 [TBL] [Abstract][Full Text] [Related]
11. SpatialPPI: Three-dimensional space protein-protein interaction prediction with AlphaFold Multimer. Hu W; Ohue M Comput Struct Biotechnol J; 2024 Dec; 23():1214-1225. PubMed ID: 38545599 [TBL] [Abstract][Full Text] [Related]
12. Enhancing AlphaFold-Multimer-based Protein Complex Structure Prediction with MULTICOM in CASP15. Liu J; Guo Z; Wu T; Roy RS; Quadir F; Chen C; Cheng J bioRxiv; 2023 May; ():. PubMed ID: 37293073 [TBL] [Abstract][Full Text] [Related]
13. Predicting RNA distance-based contact maps by integrated deep learning on physics-inferred secondary structure and evolutionary-derived mutational coupling. Singh J; Paliwal K; Litfin T; Singh J; Zhou Y Bioinformatics; 2022 Aug; 38(16):3900-3910. PubMed ID: 35751593 [TBL] [Abstract][Full Text] [Related]
14. ComplexQA: a deep graph learning approach for protein complex structure assessment. Zhang L; Wang S; Hou J; Si D; Zhu J; Cao R Brief Bioinform; 2023 Sep; 24(6):. PubMed ID: 37930021 [TBL] [Abstract][Full Text] [Related]
15. lociPARSE: a locality-aware invariant point attention model for scoring RNA 3D structures. Tarafder S; Bhattacharya D bioRxiv; 2024 Jul; ():. PubMed ID: 37961488 [TBL] [Abstract][Full Text] [Related]
16. Prediction of protein assemblies by structure sampling followed by interface-focused scoring. Olechnovič K; Valančauskas L; Dapkūnas J; Venclovas Č Proteins; 2023 Dec; 91(12):1724-1733. PubMed ID: 37578163 [TBL] [Abstract][Full Text] [Related]
17. PIQLE: protein-protein interface quality estimation by deep graph learning of multimeric interaction geometries. Shuvo MH; Karim M; Roche R; Bhattacharya D bioRxiv; 2023 Feb; ():. PubMed ID: 36824789 [TBL] [Abstract][Full Text] [Related]
18. A-Prot: protein structure modeling using MSA transformer. Hong Y; Lee J; Ko J BMC Bioinformatics; 2022 Mar; 23(1):93. PubMed ID: 35296230 [TBL] [Abstract][Full Text] [Related]
19. S-PLM: Structure-aware Protein Language Model via Contrastive Learning between Sequence and Structure. Wang D; Pourmirzaei M; Abbas UL; Zeng S; Manshour N; Esmaili F; Poudel B; Jiang Y; Shao Q; Chen J; Xu D bioRxiv; 2024 May; ():. PubMed ID: 37609352 [TBL] [Abstract][Full Text] [Related]
20. Pairing interacting protein sequences using masked language modeling. Lupo U; Sgarbossa D; Bitbol AF Proc Natl Acad Sci U S A; 2024 Jul; 121(27):e2311887121. PubMed ID: 38913900 [TBL] [Abstract][Full Text] [Related] [Next] [New Search]