ArticleMethods in enzymology2014
SHAPE analysis of small RNAs and riboswitches.
Article in Methods in enzymology, 2014. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 16 papers.
What it found
Each row is one number read from the abstract, on the scale the paper reported it, with its interval. Left of the dashed line favours the treatment, right favours the comparator. Under each row is the sentence it came from. New to these charts? A ten-minute tutorial.
The abstract states no effect estimate the extractor could read, or names no intervention and outcome on the map, so this paper lights no cell and moves no belief. It is still indexed, cited and linked below.
The trial behind it
Trials whose registry record cites this paper, or whose number appears in the abstract. A trial that started after this paper was published is citing it as background, not reporting it.
Neither the registry nor the abstract names a trial number. If this is a trial report, that itself is worth knowing.
Who cites it
16 citing papers in PubMed.
- Exploring functional transitions of the 2'-dG riboswitch aptamer.Proceedings of the National Academy of Sciences of the United States of America · 2026Article
- Nucleotide-Resolution Mapping Reveals Specific MLE Binding Site on roX2 lncRNA.Journal of molecular biology · 2026Article
- Designing molecular RNA switches with Restricted Boltzmann machines.Nature communications · 2025Article
- Conformational heterogeneity in the dGsw purine riboswitch: role of MgRNA (New York, N.Y.) · 2025Article
- Activation of Caged Functional RNAs by An Oxidative Transformation.Chembiochem : a European journal of chemical biology · 2025Article
- tRNA mbioRxiv : the preprint server for biology · 2023Article
- ShapeSorter: a fully probabilistic method for detecting conserved RNA structure features supported by SHAPE evidence.Nucleic acids research · 2022Article
- In vitro selection of ribozyme ligases that use prebiotically plausible 2-aminoimidazole-activated substrates.Proceedings of the National Academy of Sciences of the United States of America · 2020Article
- A Mn-sensing riboswitch activates expression of a Mn2+/Ca2+ ATPase transporter in Streptococcus.Nucleic acids research · 2019Article
- Guidelines for SHAPE Reagent Choice and Detection Strategy for RNA Structure Probing Studies.Biochemistry · 2019Article
- RNA Structural Differentiation: Opportunities with Pattern Recognition.Biochemistry · 2019Review
- SHAPE probing pictures Mg2+-dependent folding of small self-cleaving ribozymes.Nucleic acids research · 2018Article
- Large Noncoding RNAs in Bacteria.Microbiology spectrum · 2018Review
- Using RNA Sequence and Structure for the Prediction of Riboswitch Aptamer: A Comprehensive Review of Available Software and Tools.Frontiers in genetics · 2017Review
- Decoding mechanisms by which silent codon changes influence protein biogenesis and function.The international journal of biochemistry & cell biology · 2015Review
- Transfection of Sclerotinia sclerotiorum with in vitro transcripts of a naturally occurring interspecific recombinant of Sclerotinia sclerotiorum hypovirus 2 significantly reduces virulence of the fungus.Journal of virology · 2015Article
Corrections and comments
PubMed lists nothing against this paper. Absence here is not a guarantee, only a check that was made.
Authors and funding
5 authors.
Funding
Abstract
We describe structural analysis of small RNAs by SHAPE chemical probing. RNAs are treated with 1-methyl-7-nitroisatoic anhydride, a reagent that detects local nucleotide flexibility; and N-methylisatoic anhydride and 1-methyl-6-nitroisatoic anhydride, reagents which together detect higher-order and noncanonical interactions. Chemical adducts are quantified as stops during reverse transcriptase-mediated primer extension. Probing information can be used to infer conformational changes and ligand binding and to develop highly accurate models of RNA secondary structures.
Indexed as
Identifiers
What OpenQuestion holds
Registered trials
Read under generation 80e0d062 · epoch 390. Bibliography from PubMed, PubMed Central and OpenAlex; grants from NIH RePORTER; trial links from ClinicalTrials.gov; estimates, votes and beliefs from the OpenQuestion graph.