343 related articles for article (PubMed ID: 18772246)
1. ShapeFinder: a software system for high-throughput quantitative analysis of nucleic acid reactivity information resolved by capillary electrophoresis.
Vasa SM; Guex N; Wilkinson KA; Weeks KM; Giddings MC
RNA; 2008 Oct; 14(10):1979-90. PubMed ID: 18772246
[TBL] [Abstract][Full Text] [Related]
2. RNA secondary structure prediction using high-throughput SHAPE.
Lusvarghi S; Sztuba-Solinska J; Purzycka KJ; Rausch JW; Le Grice SF
J Vis Exp; 2013 May; (75):e50243. PubMed ID: 23748604
[TBL] [Abstract][Full Text] [Related]
3. Mapping RNA Structure In Vitro with SHAPE Chemistry and Next-Generation Sequencing (SHAPE-Seq).
Watters KE; Lucks JB
Methods Mol Biol; 2016; 1490():135-62. PubMed ID: 27665597
[TBL] [Abstract][Full Text] [Related]
4. Selective 2'-hydroxyl acylation analyzed by primer extension (SHAPE): quantitative RNA structure analysis at single nucleotide resolution.
Wilkinson KA; Merino EJ; Weeks KM
Nat Protoc; 2006; 1(3):1610-6. PubMed ID: 17406453
[TBL] [Abstract][Full Text] [Related]
5. QuShape: rapid, accurate, and best-practices quantification of nucleic acid probing information, resolved by capillary electrophoresis.
Karabiber F; McGinnis JL; Favorov OV; Weeks KM
RNA; 2013 Jan; 19(1):63-73. PubMed ID: 23188808
[TBL] [Abstract][Full Text] [Related]
6. High throughput structural analysis of yeast ribosomes using hSHAPE.
Leshin JA; Heselpoth R; Belew AT; Dinman J
RNA Biol; 2011; 8(3):478-87. PubMed ID: 21508682
[TBL] [Abstract][Full Text] [Related]
7. iFoldRNA v2: folding RNA with constraints.
Krokhotin A; Houlihan K; Dokholyan NV
Bioinformatics; 2015 Sep; 31(17):2891-3. PubMed ID: 25910700
[TBL] [Abstract][Full Text] [Related]
8. Automated band annotation for RNA structure probing experiments with numerous capillary electrophoresis profiles.
Lee S; Kim H; Tian S; Lee T; Yoon S; Das R
Bioinformatics; 2015 Sep; 31(17):2808-15. PubMed ID: 25943472
[TBL] [Abstract][Full Text] [Related]
9. RiboCAT: a new capillary electrophoresis data analysis tool for nucleic acid probing.
Cantara WA; Hatterschide J; Wu W; Musier-Forsyth K
RNA; 2017 Feb; 23(2):240-249. PubMed ID: 27821510
[TBL] [Abstract][Full Text] [Related]
10. Exploring RNA structural codes with SHAPE chemistry.
Weeks KM; Mauger DM
Acc Chem Res; 2011 Dec; 44(12):1280-91. PubMed ID: 21615079
[TBL] [Abstract][Full Text] [Related]
11. A peak alignment algorithm with novel improvements in application to electropherogram analysis.
Karabiber F
J Bioinform Comput Biol; 2013 Oct; 11(5):1350011. PubMed ID: 24131055
[TBL] [Abstract][Full Text] [Related]
12. High-throughput single-nucleotide structural mapping by capillary automated footprinting analysis.
Mitra S; Shcherbakova IV; Altman RB; Brenowitz M; Laederach A
Nucleic Acids Res; 2008 Jun; 36(11):e63. PubMed ID: 18477638
[TBL] [Abstract][Full Text] [Related]
13. Computational analysis of RNA structures with chemical probing data.
Ge P; Zhang S
Methods; 2015 Jun; 79-80():60-6. PubMed ID: 25687190
[TBL] [Abstract][Full Text] [Related]
14. Profiling of RNA Structure at Single-Nucleotide Resolution Using nextPARS.
Chorostecki U; Willis JR; Saus E; Gabaldon T
Methods Mol Biol; 2021; 2284():51-62. PubMed ID: 33835437
[TBL] [Abstract][Full Text] [Related]
15. Multiplexed RNA structure characterization with selective 2'-hydroxyl acylation analyzed by primer extension sequencing (SHAPE-Seq).
Lucks JB; Mortimer SA; Trapnell C; Luo S; Aviran S; Schroth GP; Pachter L; Doudna JA; Arkin AP
Proc Natl Acad Sci U S A; 2011 Jul; 108(27):11063-8. PubMed ID: 21642531
[TBL] [Abstract][Full Text] [Related]
16. INFO-RNA--a server for fast inverse RNA folding satisfying sequence constraints.
Busch A; Backofen R
Nucleic Acids Res; 2007 Jul; 35(Web Server issue):W310-3. PubMed ID: 17452349
[TBL] [Abstract][Full Text] [Related]
17. StructureFold2: Bringing chemical probing data into the computational fold of RNA structural analysis.
Tack DC; Tang Y; Ritchey LE; Assmann SM; Bevilacqua PC
Methods; 2018 Jul; 143():12-15. PubMed ID: 29410279
[TBL] [Abstract][Full Text] [Related]
18. RNA-Pareto: interactive analysis of Pareto-optimal RNA sequence-structure alignments.
Schnattinger T; Schöning U; Marchfelder A; Kestler HA
Bioinformatics; 2013 Dec; 29(23):3102-4. PubMed ID: 24045774
[TBL] [Abstract][Full Text] [Related]
19. Genome-Wide Approaches for RNA Structure Probing.
Silverman IM; Berkowitz ND; Gosai SJ; Gregory BD
Adv Exp Med Biol; 2016; 907():29-59. PubMed ID: 27256381
[TBL] [Abstract][Full Text] [Related]
20. High-Throughput Nuclease Probing of RNA Structures Using FragSeq.
Uzilov AV; Underwood JG
Methods Mol Biol; 2016; 1490():105-34. PubMed ID: 27665596
[TBL] [Abstract][Full Text] [Related]
[Next] [New Search]
