BIOMARKERS

Molecular Biopsy of Human Tumors

- a resource for Precision Medicine *

195 related articles for article (PubMed ID: 23748604)

  • 1. 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]  

  • 2. 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]  

  • 3. 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]  

  • 4. Determination of RNA Structure with In Vitro SHAPE Experiments.
    Baes R; Charlier D; Peeters E
    Methods Mol Biol; 2022; 2516():259-290. PubMed ID: 35922631
    [TBL] [Abstract][Full Text] [Related]  

  • 5. 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]  

  • 6. Selective 2'-hydroxyl acylation analyzed by primer extension and mutational profiling (SHAPE-MaP) for direct, versatile and accurate RNA structure analysis.
    Smola MJ; Rice GM; Busan S; Siegfried NA; Weeks KM
    Nat Protoc; 2015 Nov; 10(11):1643-69. PubMed ID: 26426499
    [TBL] [Abstract][Full Text] [Related]  

  • 7. 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]  

  • 8. Insights into secondary and tertiary interactions of dengue virus RNA by SHAPE.
    Sztuba-Solinska J; Le Grice SF
    Methods Mol Biol; 2014; 1138():225-39. PubMed ID: 24696340
    [TBL] [Abstract][Full Text] [Related]  

  • 9. The mechanisms of RNA SHAPE chemistry.
    McGinnis JL; Dunkle JA; Cate JH; Weeks KM
    J Am Chem Soc; 2012 Apr; 134(15):6617-24. PubMed ID: 22475022
    [TBL] [Abstract][Full Text] [Related]  

  • 10. 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]  

  • 11. Sequencing-based analysis of RNA structures in living cells with 2A3 via SHAPE-MaP.
    Incarnato D
    Methods Enzymol; 2023; 691():153-181. PubMed ID: 37914444
    [TBL] [Abstract][Full Text] [Related]  

  • 12. 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]  

  • 13. Analysis of the RNA backbone: structural analysis of riboswitches by in-line probing and selective 2'-hydroxyl acylation and primer extension.
    Wakeman CA; Winkler WC
    Methods Mol Biol; 2009; 540():173-91. PubMed ID: 19381560
    [TBL] [Abstract][Full Text] [Related]  

  • 14. 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]  

  • 15. SHAPE-Seq 2.0: systematic optimization and extension of high-throughput chemical probing of RNA secondary structure with next generation sequencing.
    Loughrey D; Watters KE; Settle AH; Lucks JB
    Nucleic Acids Res; 2014 Dec; 42(21):e165. PubMed ID: 25303992
    [TBL] [Abstract][Full Text] [Related]  

  • 16. In-cell RNA structure probing with SHAPE-MaP.
    Smola MJ; Weeks KM
    Nat Protoc; 2018 Jun; 13(6):1181-1195. PubMed ID: 29725122
    [TBL] [Abstract][Full Text] [Related]  

  • 17. SHAPE Profiling to Probe Group II Intron Conformational Dynamics During Splicing.
    Wiryaman T; Toor N
    Methods Mol Biol; 2021; 2167():171-182. PubMed ID: 32712920
    [TBL] [Abstract][Full Text] [Related]  

  • 18. 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]  

  • 19. 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]  

  • 20. Carbodiimide reagents for the chemical probing of RNA structure in cells.
    Wang PY; Sexton AN; Culligan WJ; Simon MD
    RNA; 2019 Jan; 25(1):135-146. PubMed ID: 30389828
    [TBL] [Abstract][Full Text] [Related]  

    [Next]    [New Search]
    of 10.