BIOMARKERS

Molecular Biopsy of Human Tumors

- a resource for Precision Medicine *

531 related articles for article (PubMed ID: 21642531)

  • 1. 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]  

  • 2. Modeling and automation of sequencing-based characterization of RNA structure.
    Aviran S; Trapnell C; Lucks JB; Mortimer SA; Luo S; Schroth GP; Doudna JA; Arkin AP; Pachter L
    Proc Natl Acad Sci U S A; 2011 Jul; 108(27):11069-74. PubMed ID: 21642536
    [TBL] [Abstract][Full Text] [Related]  

  • 3. Characterizing RNA structures in vitro and in vivo with selective 2'-hydroxyl acylation analyzed by primer extension sequencing (SHAPE-Seq).
    Watters KE; Yu AM; Strobel EJ; Settle AH; Lucks JB
    Methods; 2016 Jul; 103():34-48. PubMed ID: 27064082
    [TBL] [Abstract][Full Text] [Related]  

  • 4. 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]  

  • 5. 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]  

  • 6. 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]  

  • 7. 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]  

  • 8. 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]  

  • 9. 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]  

  • 10. SHAPE Selection (SHAPES) enrich for RNA structure signal in SHAPE sequencing-based probing data.
    Poulsen LD; Kielpinski LJ; Salama SR; Krogh A; Vinther J
    RNA; 2015 May; 21(5):1042-52. PubMed ID: 25805860
    [TBL] [Abstract][Full Text] [Related]  

  • 11. Massive parallel-sequencing-based hydroxyl radical probing of RNA accessibility.
    Kielpinski LJ; Vinther J
    Nucleic Acids Res; 2014 Apr; 42(8):e70. PubMed ID: 24569351
    [TBL] [Abstract][Full Text] [Related]  

  • 12. Reproducible Analysis of Sequencing-Based RNA Structure Probing Data with User-Friendly Tools.
    Kielpinski LJ; Sidiropoulos N; Vinther J
    Methods Enzymol; 2015; 558():153-180. PubMed ID: 26068741
    [TBL] [Abstract][Full Text] [Related]  

  • 13. 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]  

  • 14. Mod-seq: high-throughput sequencing for chemical probing of RNA structure.
    Talkish J; May G; Lin Y; Woolford JL; McManus CJ
    RNA; 2014 May; 20(5):713-20. PubMed ID: 24664469
    [TBL] [Abstract][Full Text] [Related]  

  • 15. Time-resolved RNA SHAPE chemistry: quantitative RNA structure analysis in one-second snapshots and at single-nucleotide resolution.
    Mortimer SA; Weeks KM
    Nat Protoc; 2009; 4(10):1413-21. PubMed ID: 19745823
    [TBL] [Abstract][Full Text] [Related]  

  • 16. Selective 2'-hydroxyl acylation analyzed by protection from exoribonuclease.
    Steen KA; Malhotra A; Weeks KM
    J Am Chem Soc; 2010 Jul; 132(29):9940-3. PubMed ID: 20597503
    [TBL] [Abstract][Full Text] [Related]  

  • 17. Classification of RNA structure change by 'gazing' at experimental data.
    Woods CT; Laederach A
    Bioinformatics; 2017 Jun; 33(11):1647-1655. PubMed ID: 28130241
    [TBL] [Abstract][Full Text] [Related]  

  • 18. Distributed biotin-streptavidin transcription roadblocks for mapping cotranscriptional RNA folding.
    Strobel EJ; Watters KE; Nedialkov Y; Artsimovitch I; Lucks JB
    Nucleic Acids Res; 2017 Jul; 45(12):e109. PubMed ID: 28398514
    [TBL] [Abstract][Full Text] [Related]  

  • 19. Genome-Wide Probing of RNA Structures In Vitro Using Nucleases and Deep Sequencing.
    Wan Y; Qu K; Ouyang Z; Chang HY
    Methods Mol Biol; 2016; 1361():141-60. PubMed ID: 26483021
    [TBL] [Abstract][Full Text] [Related]  

  • 20. RNA structure analysis at single nucleotide resolution by selective 2'-hydroxyl acylation and primer extension (SHAPE).
    Merino EJ; Wilkinson KA; Coughlan JL; Weeks KM
    J Am Chem Soc; 2005 Mar; 127(12):4223-31. PubMed ID: 15783204
    [TBL] [Abstract][Full Text] [Related]  

    [Next]    [New Search]
    of 27.