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.
2. Rtools: a web server for various secondary structural analyses on single RNA sequences. Hamada M; Ono Y; Kiryu H; Sato K; Kato Y; Fukunaga T; Mori R; Asai K Nucleic Acids Res; 2016 Jul; 44(W1):W302-7. PubMed ID: 27131356 [TBL] [Abstract][Full Text] [Related]
3. RNA 3D Structure Modeling by Combination of Template-Based Method ModeRNA, Template-Free Folding with SimRNA, and Refinement with QRNAS. Piatkowski P; Kasprzak JM; Kumar D; Magnus M; Chojnowski G; Bujnicki JM Methods Mol Biol; 2016; 1490():217-35. PubMed ID: 27665602 [TBL] [Abstract][Full Text] [Related]
5. CHSalign: A Web Server That Builds upon Junction-Explorer and RNAJAG for Pairwise Alignment of RNA Secondary Structures with Coaxial Helical Stacking. Hua L; Song Y; Kim N; Laing C; Wang JT; Schlick T PLoS One; 2016; 11(1):e0147097. PubMed ID: 26789998 [TBL] [Abstract][Full Text] [Related]
6. Secondary Structure Prediction of Single Sequences Using RNAstructure. Xu ZZ; Mathews DH Methods Mol Biol; 2016; 1490():15-34. PubMed ID: 27665590 [TBL] [Abstract][Full Text] [Related]
7. Vfold: a web server for RNA structure and folding thermodynamics prediction. Xu X; Zhao P; Chen SJ PLoS One; 2014; 9(9):e107504. PubMed ID: 25215508 [TBL] [Abstract][Full Text] [Related]
8. FoldNucleus: web server for the prediction of RNA and protein folding nuclei from their 3D structures. Pereyaslavets LB; Sokolovsky IV; Galzitskaya OV Bioinformatics; 2015 Oct; 31(20):3374-6. PubMed ID: 26104744 [TBL] [Abstract][Full Text] [Related]
9. TBI server: a web server for predicting ion effects in RNA folding. Zhu Y; He Z; Chen SJ PLoS One; 2015; 10(3):e0119705. PubMed ID: 25798933 [TBL] [Abstract][Full Text] [Related]
10. Crumple: An Efficient Tool to Explore Thoroughly the RNA Folding Landscape. Guerra I; Schroeder SJ Methods Mol Biol; 2016; 1490():1-14. PubMed ID: 27665589 [TBL] [Abstract][Full Text] [Related]
11. Computing folding pathways between RNA secondary structures. Dotu I; Lorenz WA; Van Hentenryck P; Clote P Nucleic Acids Res; 2010 Mar; 38(5):1711-22. PubMed ID: 20044352 [TBL] [Abstract][Full Text] [Related]
12. BEAM web server: a tool for structural RNA motif discovery. Pietrosanto M; Adinolfi M; Casula R; Ausiello G; Ferrè F; Helmer-Citterich M Bioinformatics; 2018 Mar; 34(6):1058-1060. PubMed ID: 29095974 [TBL] [Abstract][Full Text] [Related]
13. CoBold: a method for identifying different functional classes of transient RNA structure features that can impact RNA structure formation in vivo. Martín AL; Mounir M; Meyer IM Nucleic Acids Res; 2021 Feb; 49(4):e19. PubMed ID: 33095878 [TBL] [Abstract][Full Text] [Related]
14. The RNAsnp web server: predicting SNP effects on local RNA secondary structure. Sabarinathan R; Tafer H; Seemann SE; Hofacker IL; Stadler PF; Gorodkin J Nucleic Acids Res; 2013 Jul; 41(Web Server issue):W475-9. PubMed ID: 23630321 [TBL] [Abstract][Full Text] [Related]
16. RNA-MoIP: prediction of RNA secondary structure and local 3D motifs from sequence data. Yao J; Reinharz V; Major F; Waldispühl J Nucleic Acids Res; 2017 Jul; 45(W1):W440-W444. PubMed ID: 28525607 [TBL] [Abstract][Full Text] [Related]
17. Rtools: A Web Server for Various Secondary Structural Analyses on Single RNA Sequences. Ono Y; Asai K Methods Mol Biol; 2023; 2586():1-14. PubMed ID: 36705895 [TBL] [Abstract][Full Text] [Related]
18. Web-Beagle: a web server for the alignment of RNA secondary structures. Mattei E; Pietrosanto M; Ferrè F; Helmer-Citterich M Nucleic Acids Res; 2015 Jul; 43(W1):W493-7. PubMed ID: 25977293 [TBL] [Abstract][Full Text] [Related]
19. The RNAz web server: prediction of thermodynamically stable and evolutionarily conserved RNA structures. Gruber AR; Neuböck R; Hofacker IL; Washietl S Nucleic Acids Res; 2007 Jul; 35(Web Server issue):W335-8. PubMed ID: 17452347 [TBL] [Abstract][Full Text] [Related]
20. SAVoR: a server for sequencing annotation and visualization of RNA structures. Li F; Ryvkin P; Childress DM; Valladares O; Gregory BD; Wang LS Nucleic Acids Res; 2012 Jul; 40(Web Server issue):W59-64. PubMed ID: 22492627 [TBL] [Abstract][Full Text] [Related] [Next] [New Search]