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RING-MaP specifications

Information


Unique identifier OMICS_08197
Name RING-MaP
Alternative name RNA interaction groups by mutational profiling
Software type Package/Module
Interface Command line interface
Restrictions to use None
Operating system Unix/Linux
Computer skills Advanced
Stability Stable
Maintained No

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Publication for RNA interaction groups by mutational profiling

RING-MaP citations

 (5)
library_books

Statistical modeling of RNA structure profiling experiments enables parsimonious reconstruction of structure landscapes

2018
Nat Commun
PMCID: 5807309
PMID: 29426922
DOI: 10.1038/s41467-018-02923-8

[…] , primarily due to computational challenges. One key difficulty stems from the fact that SP measurements capture an ensemble-weighted average over the different structures,. Other than M2-REEFFIT and RING-MaP,, current approaches entail large-scale data-directed sampling of suboptimal secondary structures, which interprets SP data as the signature of one structure that dominates in solution. Furth […]

library_books

Understanding the Functions of Long Non Coding RNAs through Their Higher Order Structures

2016
Int J Mol Sci
PMCID: 4881525
PMID: 27196897
DOI: 10.3390/ijms17050702

[…] -1 RNA structure modeling, including the improvement of energy and pseudoknots models []. Mutational profiling analysis has been employed in other in vitro RNA structure probing techniques, including RNA interaction groups by mutational profiling (RING-MaP) (), developed by Homan et al., which has been successfully used to establish the 3D RNA structure of thiamine pyrophosphate (TPP) riboswitch, […]

library_books

Rich RNA Structure Landscapes Revealed by Mutate and Map Analysis

2015
PLoS Comput Biol
PMCID: 4643908
PMID: 26566145
DOI: 10.1371/journal.pcbi.1004473

[…] ex landscapes could arise in artificial RNAs without explicit natural selection or design. Prior techniques for detecting alternative structures, including covariation-based methods [] and the recent RING-MaP method [], have not been benchmarked in cases with well-characterized landscapes and may be biased towards or against alternative structures. Therefore, we developed three tests for M2-REEFFI […]

library_books

RNA Viruses: RNA Roles in Pathogenesis, Coreplication and Viral Load

2015
Curr Genomics
PMCID: 4763971
PMID: 27047253
DOI: 10.2174/1389202916666150707160613

[…] ultiple sites were chemically modified are identified by massively parallel sequencing of single RNA strands, and then analyzed for correlated and clustered interactions. The strategy thus identified RNA interaction groups by mutational profiling (RING-MaP) and made possible two applications. Firstly, through space interactions, 3D models were created for RNAs, spanning 80–265 nucleotides, and int […]

library_books

The potential of the riboSNitch in personalized medicine

2015
PMCID: 4543445
PMID: 26115028
DOI: 10.1002/wrna.1291

[…] tic data now available on human diseases and phenotypes, , , and determining the mutations for which RNA structure change is a component of the phenotypic etiology. Two new techniques, SHAPE‐MaP and RING‐MaP, detect sites of modification by mutation rather than strand termination thereby eliminating several types of artifacts., These two methods should generally not interfere with identification […]

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RING-MaP institution(s)
Department of Chemistry, University of North Carolina, Chapel Hill, NC, USA

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