Robust statistical modeling improves sensitivity of high-throughput RNA structure probing experiments (Q39209814)

10 September 2017

title

Robust statistical modeling improves sensitivity of high-throughput RNA structure probing experiments (English)

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10 September 2017

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Ira Iosub

3

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Sander Granneman

object named as

Sander Granneman

4

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author name string

Alina Selega

1

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10 September 2017

Christel Sirocchi

2

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10 September 2017

Guido Sanguinetti

5

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10 September 2017

publication date

7 November 2016

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10 September 2017

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10 September 2017

volume

14

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10 September 2017

issue

1

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10 September 2017

page(s)

83-89

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https://scigraph.springernature.com/pub.10.1038/nmeth.4068

10 September 2017

exact match

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cites work

Progress and challenges for chemical probing of RNA structure inside living cells

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A fast-acting reagent for accurate analysis of RNA secondary and tertiary structure by SHAPE chemistry

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RNA SHAPE analysis in living cells

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In vivo genome-wide profiling of RNA secondary structure reveals novel regulatory features.

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Genome-wide probing of RNA structure reveals active unfolding of mRNA structures in vivo

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Snapshots of pre-rRNA structural flexibility reveal eukaryotic 40S assembly dynamics at nucleotide resolution

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Library preparation methods for next-generation sequencing: tone down the bias

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Mod-seq: high-throughput sequencing for chemical probing of RNA structure

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

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The structure of the eukaryotic ribosome at 3.0 Å resolution

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Structure of a yeast 40S-eIF1-eIF1A-eIF3-eIF3j initiation complex

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Massive parallel-sequencing-based hydroxyl radical probing of RNA accessibility

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StructureFold: genome-wide RNA secondary structure mapping and reconstruction in vivo.

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Network of epistatic interactions within a yeast snoRNA.

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An in vivo and in vitro structure-function analysis of the Saccharomyces cerevisiae U3A snoRNP: protein-RNA contacts and base-pair interaction with the pre-ribosomal RNA

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Coding-sequence determinants of gene expression in Escherichia coli

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Translation efficiency is determined by both codon bias and folding energy

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Genome-wide measurement of RNA secondary structure in yeast

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mRNA helicase activity of the ribosome

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Reconsidering movement of eukaryotic mRNAs between polysomes and P bodies

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Modeling and automation of sequencing-based characterization of RNA structure

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Data-directed RNA secondary structure prediction using probabilistic modeling

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Computational analysis of conserved RNA secondary structure in transcriptomes and genomes

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PAR-CLIP data indicate that Nrd1-Nab3-dependent transcription termination regulates expression of hundreds of protein coding genes in yeast

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ROCR: visualizing classifier performance in R

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SHAPE-directed RNA secondary structure prediction

21 January 2018

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

21 January 2018

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Rfam 12.0: updates to the RNA families database

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Role of pre-rRNA base pairing and 80S complex formation in subnucleolar localization of the U3 snoRNP

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P-Values are Random Variables

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A yeast small nuclear RNA is required for normal processing of pre-ribosomal RNA

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1 reference

PubMed

https://pubmed.ncbi.nlm.nih.gov/27819660

inferred from PubMed ID database lookup

12 December 2020

based on heuristic

Identifiers

DOI

10.1038/NMETH.4068

1 reference

10 September 2017

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