153 related articles for article (PubMed ID: 33374382)
1. RNA Secondary Structures with Limited Base Pair Span: Exact Backtracking and an Application.
Lorenz R; Stadler PF
Genes (Basel); 2020 Dec; 12(1):. PubMed ID: 33374382
[TBL] [Abstract][Full Text] [Related]
2. Prediction of locally stable RNA secondary structures for genome-wide surveys.
Hofacker IL; Priwitzer B; Stadler PF
Bioinformatics; 2004 Jan; 20(2):186-90. PubMed ID: 14734309
[TBL] [Abstract][Full Text] [Related]
3. Rfold: an exact algorithm for computing local base pairing probabilities.
Kiryu H; Kin T; Asai K
Bioinformatics; 2008 Feb; 24(3):367-73. PubMed ID: 18056736
[TBL] [Abstract][Full Text] [Related]
4. Computing the partition function for kinetically trapped RNA secondary structures.
Lorenz WA; Clote P
PLoS One; 2011 Jan; 6(1):e16178. PubMed ID: 21297972
[TBL] [Abstract][Full Text] [Related]
5. Computing the partition function and sampling for saturated secondary structures of RNA, with respect to the Turner energy model.
Waldispühl J; Clote P
J Comput Biol; 2007 Mar; 14(2):190-215. PubMed ID: 17456015
[TBL] [Abstract][Full Text] [Related]
6. A folding algorithm for extended RNA secondary structures.
Höner zu Siederdissen C; Bernhart SH; Stadler PF; Hofacker IL
Bioinformatics; 2011 Jul; 27(13):i129-36. PubMed ID: 21685061
[TBL] [Abstract][Full Text] [Related]
7. RnaPredict--an evolutionary algorithm for RNA secondary structure prediction.
Wiese K; Deschenes A; Hendriks A
IEEE/ACM Trans Comput Biol Bioinform; 2008; 5(1):25-41. PubMed ID: 18245873
[TBL] [Abstract][Full Text] [Related]
8. A Unified Dynamic Programming Framework for the Analysis of Interacting Nucleic Acid Strands: Enhanced Models, Scalability, and Speed.
Fornace ME; Porubsky NJ; Pierce NA
ACS Synth Biol; 2020 Oct; 9(10):2665-2678. PubMed ID: 32910644
[TBL] [Abstract][Full Text] [Related]
9. 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]
10. Rchange: algorithms for computing energy changes of RNA secondary structures in response to base mutations.
Kiryu H; Asai K
Bioinformatics; 2012 Apr; 28(8):1093-101. PubMed ID: 22373787
[TBL] [Abstract][Full Text] [Related]
11. Memory efficient folding algorithms for circular RNA secondary structures.
Hofacker IL; Stadler PF
Bioinformatics; 2006 May; 22(10):1172-6. PubMed ID: 16452114
[TBL] [Abstract][Full Text] [Related]
12. Predicting RNA structure: advances and limitations.
Hofacker IL; Lorenz R
Methods Mol Biol; 2014; 1086():1-19. PubMed ID: 24136595
[TBL] [Abstract][Full Text] [Related]
13. 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]
14. Local RNA base pairing probabilities in large sequences.
Bernhart SH; Hofacker IL; Stadler PF
Bioinformatics; 2006 Mar; 22(5):614-5. PubMed ID: 16368769
[TBL] [Abstract][Full Text] [Related]
15. Modified Nucleotides and RNA Structure Prediction.
Varenyk Y; Lorenz R
Methods Mol Biol; 2024; 2726():169-207. PubMed ID: 38780732
[TBL] [Abstract][Full Text] [Related]
16. Partition function and base pairing probabilities for RNA-RNA interaction prediction.
Huang FW; Qin J; Reidys CM; Stadler PF
Bioinformatics; 2009 Oct; 25(20):2646-54. PubMed ID: 19671692
[TBL] [Abstract][Full Text] [Related]
17. An efficient algorithm to compute the landscape of locally optimal RNA secondary structures with respect to the Nussinov-Jacobson energy model.
Clote P
J Comput Biol; 2005; 12(1):83-101. PubMed ID: 15725735
[TBL] [Abstract][Full Text] [Related]
18. Secondary structure prediction of interacting RNA molecules.
Andronescu M; Zhang ZC; Condon A
J Mol Biol; 2005 Feb; 345(5):987-1001. PubMed ID: 15644199
[TBL] [Abstract][Full Text] [Related]
19. 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]
20. 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]
[Next] [New Search]
