FragSeq: transcriptome-wide RNA structure probing using high-throughput sequencing (Q33740599)

29 July 2017

FragSeq: transcriptome-wide RNA structure probing using high-throughput sequencing (English)

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high-throughput sequencing

29 July 2017

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9

David Haussler

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author name string

Jason G Underwood

1

1 reference

29 July 2017

Andrew V Uzilov

2

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29 July 2017

Sol Katzman

3

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29 July 2017

Courtney S Onodera

4

1 reference

29 July 2017

Jacob E Mainzer

5

1 reference

29 July 2017

David H Mathews

6

1 reference

29 July 2017

Todd M Lowe

7

1 reference

29 July 2017

Sofie R Salama

8

1 reference

29 July 2017

7 November 2010

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29 July 2017

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29 July 2017

7

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29 July 2017

995-1001

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29 July 2017

12

1 reference

https://scigraph.springernature.com/pub.10.1038/nmeth.1529

29 July 2017

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cites work

Genome-wide measurement of RNA secondary structure in yeast

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3247016

SHAPE-directed RNA secondary structure prediction

14 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3247016

RNAstructure: software for RNA secondary structure prediction and analysis

14 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3247016

Chromatin signature reveals over a thousand highly conserved large non-coding RNAs in mammals

14 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3247016

Post-transcriptional processing generates a diversity of 5'-modified long and short RNAs

14 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3247016

RNA-Seq: a revolutionary tool for transcriptomics

14 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3247016

Mapping and quantifying mammalian transcriptomes by RNA-Seq

14 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3247016

Computational methods in noncoding RNA research

14 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3247016

RNA maps reveal new RNA classes and a possible function for pervasive transcription

14 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3247016

Genome-wide mapping of DNase hypersensitive sites using massively parallel signature sequencing (MPSS)

14 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3247016

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

14 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3247016

Gene regulation by riboswitches

14 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3247016

Single-strand-specific nucleases

14 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3247016

Conversion of embryonic stem cells into neuroectodermal precursors in adherent monoculture

14 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3247016

Direct probing of RNA structure and RNA-protein interactions in purified HeLa cell's and yeast spliceosomal U4/U6.U5 tri-snRNP particles

14 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3247016

microRNAs: tiny regulators with great potential

14 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3247016

Nuclease protection of RNAs containing site-specific labels: a rapid method for mapping RNA-protein interactions

14 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3247016

Recognition of single-stranded DNA by nuclease P1: high resolution crystal structures of complexes with substrate analogs

14 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3247016

Site-specific ribose methylation of preribosomal RNA: a novel function for small nucleolar RNAs

14 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3247016

Requirement for intron-encoded U22 small nucleolar RNA in 18S ribosomal RNA maturation

14 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3247016

Structural analysis of the human U3 ribonucleoprotein particle reveal a conserved sequence available for base pairing with pre-rRNA.

14 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3247016

The U3 small nucleolar ribonucleoprotein functions in the first step of preribosomal RNA processing

14 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3247016

3'-Phosphatase activity in T4 polynucleotide kinase

14 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3247016

P1 nuclease cleavage is dependent on length of the mismatches in DNA.

14 July 2018

1 reference

https://api.crossref.org/works/10.1038%2FNMETH.1529

Disruption of U8 nucleolar snRNA inhibits 5.8S and 28S rRNA processing in the Xenopus oocyte.

21 January 2018

1 reference

https://api.crossref.org/works/10.1038%2FNMETH.1529

Efficient method to generate single-copy transgenic mice by site-specific integration in embryonic stem cells

21 January 2018

1 reference

https://api.crossref.org/works/10.1038%2FNMETH.1529

Gene trapping methods for the identification and functional analysis of cell surface proteins in mice

21 January 2018

1 reference

https://api.crossref.org/works/10.1038%2FNMETH.1529

Trinucleotide repeat system for sequence specificity analysis of RNA structure probing reagents

21 January 2018

1 reference

PubMed

https://pubmed.ncbi.nlm.nih.gov/21057495

inferred from PubMed ID database lookup

12 December 2020

based on heuristic

Enzymatic approaches to probing of RNA secondary and tertiary structure

1 reference

PubMed

https://pubmed.ncbi.nlm.nih.gov/21057495

inferred from PubMed ID database lookup

12 December 2020

based on heuristic

Identifiers

DOI

10.1038/NMETH.1529

1 reference

Dimensions Publication ID

29 July 2017

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1 reference

29 July 2017

1 reference