53 related articles for article (PubMed ID: 21335320)
1. Topology and prediction of RNA pseudoknots.
Reidys CM; Huang FW; Andersen JE; Penner RC; Stadler PF; Nebel ME
Bioinformatics; 2011 Apr; 27(8):1076-85. PubMed ID: 21335320
[TBL] [Abstract][Full Text] [Related]
2. HotKnots: heuristic prediction of RNA secondary structures including pseudoknots.
Ren J; Rastegari B; Condon A; Hoos HH
RNA; 2005 Oct; 11(10):1494-504. PubMed ID: 16199760
[TBL] [Abstract][Full Text] [Related]
3. New algorithms to represent complex pseudoknotted RNA structures in dot-bracket notation.
Antczak M; Popenda M; Zok T; Zurkowski M; Adamiak RW; Szachniuk M
Bioinformatics; 2018 Apr; 34(8):1304-1312. PubMed ID: 29236971
[TBL] [Abstract][Full Text] [Related]
4. An efficient simulated annealing algorithm for the RNA secondary structure prediction with Pseudoknots.
Kai Z; Yuting W; Yulin L; Jun L; Juanjuan H
BMC Genomics; 2019 Dec; 20(Suppl 13):979. PubMed ID: 31881969
[TBL] [Abstract][Full Text] [Related]
5. Pseudoknots in RNA folding landscapes.
Kucharík M; Hofacker IL; Stadler PF; Qin J
Bioinformatics; 2016 Jan; 32(2):187-94. PubMed ID: 26428288
[TBL] [Abstract][Full Text] [Related]
6. A heuristic approach for detecting RNA H-type pseudoknots.
Huang CH; Lu CL; Chiu HT
Bioinformatics; 2005 Sep; 21(17):3501-8. PubMed ID: 15994188
[TBL] [Abstract][Full Text] [Related]
7. Knotify_V2.0: Deciphering RNA Secondary Structures with H-Type Pseudoknots and Hairpin Loops.
Kolaitis A; Makris E; Karagiannis AA; Tsanakas P; Pavlatos C
Genes (Basel); 2024 May; 15(6):. PubMed ID: 38927606
[TBL] [Abstract][Full Text] [Related]
8. Prediction and statistics of pseudoknots in RNA structures using exactly clustered stochastic simulations.
Xayaphoummine A; Bucher T; Thalmann F; Isambert H
Proc Natl Acad Sci U S A; 2003 Dec; 100(26):15310-5. PubMed ID: 14676318
[TBL] [Abstract][Full Text] [Related]
9. 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]
10. TransUFold: Unlocking the structural complexity of short and long RNA with pseudoknots.
Wang Y; Zhang H; Xu Z; Zhang S; Guo R
Math Biosci Eng; 2023 Oct; 20(11):19320-19340. PubMed ID: 38052602
[TBL] [Abstract][Full Text] [Related]
11. LinearFold: linear-time approximate RNA folding by 5'-to-3' dynamic programming and beam search.
Huang L; Zhang H; Deng D; Zhao K; Liu K; Hendrix DA; Mathews DH
Bioinformatics; 2019 Jul; 35(14):i295-i304. PubMed ID: 31510672
[TBL] [Abstract][Full Text] [Related]
12. Ensemble-based prediction of RNA secondary structures.
Aghaeepour N; Hoos HH
BMC Bioinformatics; 2013 Apr; 14():139. PubMed ID: 23617269
[TBL] [Abstract][Full Text] [Related]
13. ATTfold: RNA Secondary Structure Prediction With Pseudoknots Based on Attention Mechanism.
Wang Y; Liu Y; Wang S; Liu Z; Gao Y; Zhang H; Dong L
Front Genet; 2020; 11():612086. PubMed ID: 33384721
[TBL] [Abstract][Full Text] [Related]
14. Profiling small RNA reveals multimodal substructural signals in a Boltzmann ensemble.
Rogers E; Heitsch CE
Nucleic Acids Res; 2014 Dec; 42(22):e171. PubMed ID: 25392423
[TBL] [Abstract][Full Text] [Related]
15. Modified RNAs and predictions with the ViennaRNA Package.
Varenyk Y; Spicher T; Hofacker IL; Lorenz R
Bioinformatics; 2023 Nov; 39(11):. PubMed ID: 37971965
[TBL] [Abstract][Full Text] [Related]
16. Automated design of dynamic programming schemes for RNA folding with pseudoknots.
Marchand B; Will S; Berkemer SJ; Ponty Y; Bulteau L
Algorithms Mol Biol; 2023 Dec; 18(1):18. PubMed ID: 38041153
[TBL] [Abstract][Full Text] [Related]
17. RNA secondary structure factorization in prime tangles.
Marchei D; Merelli E
BMC Bioinformatics; 2022 Aug; 23(Suppl 6):345. PubMed ID: 35982399
[TBL] [Abstract][Full Text] [Related]
18. Structural relation matching: an algorithm to identify structural patterns into RNAs and their interactions.
Quadrini M
J Integr Bioinform; 2021 May; 18(2):111-126. PubMed ID: 34051708
[TBL] [Abstract][Full Text] [Related]
19. Diagrammatic approaches to RNA structures with trinucleotide repeats.
Mak CH; Phan ENH
Biophys J; 2021 Jun; 120(11):2343-2354. PubMed ID: 33887227
[TBL] [Abstract][Full Text] [Related]
20.
; ; . PubMed ID:
[No Abstract] [Full Text] [Related]
[Next] [New Search]
