181 related articles for article (PubMed ID: 36026505)
1. RAFFT: Efficient prediction of RNA folding pathways using the fast Fourier transform.
Opuu V; Merleau NSC; Messow V; Smerlak M
PLoS Comput Biol; 2022 Aug; 18(8):e1010448. PubMed ID: 36026505
[TBL] [Abstract][Full Text] [Related]
2. Predicting folding pathways between RNA conformational structures guided by RNA stacks.
Li Y; Zhang S
BMC Bioinformatics; 2012 Mar; 13 Suppl 3(Suppl 3):S5. PubMed ID: 22536903
[TBL] [Abstract][Full Text] [Related]
3. DrTransformer: heuristic cotranscriptional RNA folding using the nearest neighbor energy model.
Badelt S; Lorenz R; Hofacker IL
Bioinformatics; 2023 Jan; 39(1):. PubMed ID: 36655786
[TBL] [Abstract][Full Text] [Related]
4. Using the fast fourier transform to accelerate the computational search for RNA conformational switches.
Senter E; Sheikh S; Dotu I; Ponty Y; Clote P
PLoS One; 2012; 7(12):e50506. PubMed ID: 23284639
[TBL] [Abstract][Full Text] [Related]
5. RNA folding with soft constraints: reconciliation of probing data and thermodynamic secondary structure prediction.
Washietl S; Hofacker IL; Stadler PF; Kellis M
Nucleic Acids Res; 2012 May; 40(10):4261-72. PubMed ID: 22287623
[TBL] [Abstract][Full Text] [Related]
6. Ant colony optimization for predicting RNA folding pathways.
Takitou S; Taneda A
Comput Biol Chem; 2019 Dec; 83():107118. PubMed ID: 31698162
[TBL] [Abstract][Full Text] [Related]
7. Base-pair ambiguity and the kinetics of RNA folding.
Zhou G; Loper J; Geman S
BMC Bioinformatics; 2019 Dec; 20(1):666. PubMed ID: 31830902
[TBL] [Abstract][Full Text] [Related]
8. Evaluating the effect of disturbed ensemble distributions on SCFG based statistical sampling of RNA secondary structures.
Scheid A; Nebel ME
BMC Bioinformatics; 2012 Jul; 13():159. PubMed ID: 22776037
[TBL] [Abstract][Full Text] [Related]
9. Cotranscriptional folding kinetics of ribonucleic acid secondary structures.
Zhao P; Zhang W; Chen SJ
J Chem Phys; 2011 Dec; 135(24):245101. PubMed ID: 22225186
[TBL] [Abstract][Full Text] [Related]
10. Polymer uncrossing and knotting in protein folding, and their role in minimal folding pathways.
Mohazab AR; Plotkin SS
PLoS One; 2013; 8(1):e53642. PubMed ID: 23365638
[TBL] [Abstract][Full Text] [Related]
11. Challenges and approaches to predicting RNA with multiple functional structures.
Schroeder SJ
RNA; 2018 Dec; 24(12):1615-1624. PubMed ID: 30143552
[TBL] [Abstract][Full Text] [Related]
12. Cotranscriptional Kinetic Folding of RNA Secondary Structures Including Pseudoknots.
Thanh VH; Korpela D; Orponen P
J Comput Biol; 2021 Sep; 28(9):892-908. PubMed ID: 33902324
[No Abstract] [Full Text] [Related]
13. Multicore and GPU algorithms for Nussinov RNA folding.
Li J; Ranka S; Sahni S
BMC Bioinformatics; 2014; 15 Suppl 8(Suppl 8):S1. PubMed ID: 25082539
[TBL] [Abstract][Full Text] [Related]
14. PSRna: Prediction of small RNA secondary structures based on reverse complementary folding method.
Li J; Xu C; Wang L; Liang H; Feng W; Cai Z; Wang Y; Cong W; Liu Y
J Bioinform Comput Biol; 2016 Aug; 14(4):1643001. PubMed ID: 27045556
[TBL] [Abstract][Full Text] [Related]
15. Discretized torsional dynamics and the folding of an RNA chain.
Fernández A; Salthú R; Cendra H
Phys Rev E Stat Phys Plasmas Fluids Relat Interdiscip Topics; 1999 Aug; 60(2 Pt B):2105-19. PubMed ID: 11970003
[TBL] [Abstract][Full Text] [Related]
16. Lost in folding space? Comparing four variants of the thermodynamic model for RNA secondary structure prediction.
Janssen S; Schudoma C; Steger G; Giegerich R
BMC Bioinformatics; 2011 Nov; 12():429. PubMed ID: 22051375
[TBL] [Abstract][Full Text] [Related]
17. Crumple: a method for complete enumeration of all possible pseudoknot-free RNA secondary structures.
Bleckley S; Stone JW; Schroeder SJ
PLoS One; 2012; 7(12):e52414. PubMed ID: 23300665
[TBL] [Abstract][Full Text] [Related]
18. Energy-based RNA consensus secondary structure prediction in multiple sequence alignments.
Washietl S; Bernhart SH; Kellis M
Methods Mol Biol; 2014; 1097():125-41. PubMed ID: 24639158
[TBL] [Abstract][Full Text] [Related]
19. Consensus folding of unaligned RNA sequences revisited.
Bafna V; Tang H; Zhang S
J Comput Biol; 2006 Mar; 13(2):283-95. PubMed ID: 16597240
[TBL] [Abstract][Full Text] [Related]
20. Limits in accuracy and a strategy of RNA structure prediction using experimental information.
Wang J; Williams B; Chirasani VR; Krokhotin A; Das R; Dokholyan NV
Nucleic Acids Res; 2019 Jun; 47(11):5563-5572. PubMed ID: 31106330
[TBL] [Abstract][Full Text] [Related]
[Next] [New Search]
