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Literature DB >> 21057487

Toward global RNA structure analysis.

David M Mauger, Kevin M Weeks.

Abstract

Entities: Species

Mesh：

Substances：
RNA, Messenger
RNA

Year: 2010 PMID： 21057487 PMCID： PMC4939837 DOI： 10.1038/nbt1110-1178

Source DB: PubMed Journal: Nat Biotechnol ISSN： 1087-0156 Impact factor: 54.908

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9 in total

1. Expanded sequence dependence of thermodynamic parameters improves prediction of RNA secondary structure.

Authors: D H Mathews; J Sabina; M Zuker; D H Turner
Journal: J Mol Biol Date: 1999-05-21 Impact factor: 5.469

Review 2. Regulation of translation via mRNA structure in prokaryotes and eukaryotes.

Authors: Marilyn Kozak
Journal: Gene Date: 2005-10-05 Impact factor: 3.688

3. Accurate SHAPE-directed RNA structure determination.

Authors: Katherine E Deigan; Tian W Li; David H Mathews; Kevin M Weeks
Journal: Proc Natl Acad Sci U S A Date: 2008-12-24 Impact factor: 11.205

4. Rapid chemical probing of conformation in 16 S ribosomal RNA and 30 S ribosomal subunits using primer extension.

Authors: D Moazed; S Stern; H F Noller
Journal: J Mol Biol Date: 1986-02-05 Impact factor: 5.469

5. Interaction of antibiotics with functional sites in 16S ribosomal RNA.

Authors: D Moazed; H F Noller
Journal: Nature Date: 1987 Jun 4-10 Impact factor: 49.962

6. Genome-wide measurement of RNA secondary structure in yeast.

Authors: Michael Kertesz; Yue Wan; Elad Mazor; John L Rinn; Robert C Nutter; Howard Y Chang; Eran Segal
Journal: Nature Date: 2010-09-02 Impact factor: 49.962

7. Collection of small subunit (16S- and 16S-like) ribosomal RNA structures.

Authors: R R Gutell
Journal: Nucleic Acids Res Date: 1993-07-01 Impact factor: 16.971

8. Architecture and secondary structure of an entire HIV-1 RNA genome.

Authors: Joseph M Watts; Kristen K Dang; Robert J Gorelick; Christopher W Leonard; Julian W Bess; Ronald Swanstrom; Christina L Burch; Kevin M Weeks
Journal: Nature Date: 2009-08-06 Impact factor: 49.962

9. Analysis of the structure of Tetrahymena nuclear RNAs in vivo: telomerase RNA, the self-splicing rRNA intron, and U2 snRNA.

Authors: A J Zaug; T R Cech
Journal: RNA Date: 1995-06 Impact factor: 4.942

9 in total

11 in total

1. RNA secondary structure prediction using high-throughput SHAPE.

Authors: Sabrina Lusvarghi; Joanna Sztuba-Solinska; Katarzyna J Purzycka; Jason W Rausch; Stuart F J Le Grice
Journal: J Vis Exp Date: 2013-05-31 Impact factor: 1.355

2. Multiplexed RNA structure characterization with selective 2'-hydroxyl acylation analyzed by primer extension sequencing (SHAPE-Seq).

Authors: Julius B Lucks; Stefanie A Mortimer; Cole Trapnell; Shujun Luo; Sharon Aviran; Gary P Schroth; Lior Pachter; Jennifer A Doudna; Adam P Arkin
Journal: Proc Natl Acad Sci U S A Date: 2011-06-03 Impact factor: 11.205

3. Sharing and archiving nucleic acid structure mapping data.

Authors: Philippe Rocca-Serra; Stanislav Bellaousov; Amanda Birmingham; Chunxia Chen; Pablo Cordero; Rhiju Das; Lauren Davis-Neulander; Caia D S Duncan; Matthew Halvorsen; Rob Knight; Neocles B Leontis; David H Mathews; Justin Ritz; Jesse Stombaugh; Kevin M Weeks; Craig L Zirbel; Alain Laederach
Journal: RNA Date: 2011-05-24 Impact factor: 4.942

Toward global RNA structure analysis.

1. Expanded sequence dependence of thermodynamic parameters improves prediction of RNA secondary structure.

Review 2. Regulation of translation via mRNA structure in prokaryotes and eukaryotes.

3. Accurate SHAPE-directed RNA structure determination.

4. Rapid chemical probing of conformation in 16 S ribosomal RNA and 30 S ribosomal subunits using primer extension.

5. Interaction of antibiotics with functional sites in 16S ribosomal RNA.

6. Genome-wide measurement of RNA secondary structure in yeast.

7. Collection of small subunit (16S- and 16S-like) ribosomal RNA structures.

8. Architecture and secondary structure of an entire HIV-1 RNA genome.

9. Analysis of the structure of Tetrahymena nuclear RNAs in vivo: telomerase RNA, the self-splicing rRNA intron, and U2 snRNA.

1. RNA secondary structure prediction using high-throughput SHAPE.

2. Multiplexed RNA structure characterization with selective 2'-hydroxyl acylation analyzed by primer extension sequencing (SHAPE-Seq).

3. Sharing and archiving nucleic acid structure mapping data.

4. Exploring RNA structural codes with SHAPE chemistry.

5. Sequence-structure relationships in yeast mRNAs.

6. RNA motif discovery by SHAPE and mutational profiling (SHAPE-MaP).

Review 7. State of the art technologies to explore long non-coding RNAs in cancer.

8. Osmium tetroxide as a probe of RNA structure.

Review 9. Finding the target sites of RNA-binding proteins.

Review 10. Predicting sRNAs and their targets in bacteria.