(Q27937615)

1 December 2016

title

Pseudouridine profiling reveals regulated mRNA pseudouridylation in yeast and human cells (English)

1 reference

mRNA pseudouridine synthesis

1 December 2016

main subject

1 reference

Gene Ontology release 2020-05-02

Gene Ontology ID

GO:1990481

Pseudouridine synthase PUS1 YPL212C

1 reference

Pseudouridine synthase DEG1 YFL001W

1 reference

Pseudouridine synthase PUS2 YGL063W

1 reference

Pseudouridine synthase PUS7 YOR243C

1 reference

Pseudouridine synthase CBF5 YLR175W

1 reference

Pseudouridine synthase PUS4 YNL292W

1 reference

author

Thomas M Carlile

1

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:25192136%20AND%20SRC:MED&resulttype=core&format=json

1 June 2020

Boris Zinshteyn

3

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:25192136%20AND%20SRC:MED&resulttype=core&format=json

1 June 2020

W Gilbert

6

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:25192136%20AND%20SRC:MED&resulttype=core&format=json

1 June 2020

author name string

Maria F Rojas-Duran

2

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:25192136%20AND%20SRC:MED&resulttype=core&format=json

1 June 2020

Hakyung Shin

4

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:25192136%20AND%20SRC:MED&resulttype=core&format=json

1 June 2020

Kristen M Bartoli

5

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:25192136%20AND%20SRC:MED&resulttype=core&format=json

1 June 2020

language of work or name

English

0 references

publication date

6 November 2014

0 references

2 references

1 December 2016

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:25192136%20AND%20SRC:MED&resulttype=core&format=json

1 June 2020

volume

515

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:25192136%20AND%20SRC:MED&resulttype=core&format=json

1 June 2020

issue

7525

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:25192136%20AND%20SRC:MED&resulttype=core&format=json

1 June 2020

page(s)

143-146

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:25192136%20AND%20SRC:MED&resulttype=core&format=json

Unusual base pairing during the decoding of a stop codon by the ribosome

1 June 2020

cites work

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4224642

TopHat2: accurate alignment of transcriptomes in the presence of insertions, deletions and gene fusions

20 March 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4224642

Comprehensive analysis of mRNA methylation reveals enrichment in 3' UTRs and near stop codons

20 March 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4224642

Topology of the human and mouse m6A RNA methylomes revealed by m6A-seq

20 March 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4224642

Widespread occurrence of 5-methylcytosine in human coding and non-coding RNA

20 March 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4224642

The Sequence Alignment/Map format and SAMtools

20 March 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4224642

VARNA: Interactive drawing and editing of the RNA secondary structure

20 March 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4224642

Ultrafast and memory-efficient alignment of short DNA sequences to the human genome

20 March 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4224642

Cis-acting determinants of asymmetric, cytoplasmic RNA transport

20 March 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4224642

WebLogo: A Sequence Logo Generator

20 March 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4224642

Missense mutation in pseudouridine synthase 1 (PUS1) causes mitochondrial myopathy and sideroblastic anemia (MLASA).

20 March 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4224642

The Saccharomyces cerevisiae U2 snRNA:pseudouridine-synthase Pus7p is a novel multisite-multisubstrate RNA:Psi-synthase also acting on tRNAs

20 March 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4224642

Identification of the Saccharomyces cerevisiae RNA:pseudouridine synthase responsible for formation of psi(2819) in 21S mitochondrial ribosomal RNA.

20 March 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4224642

Functional characterization of the S. cerevisiae genome by gene deletion and parallel analysis

20 March 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4224642

Pseudouridine synthetase Pus1 of Saccharomyces cerevisiae: kinetic characterisation, tRNA structural requirement and real-time analysis of its complex with tRNA.

20 March 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4224642

Additional modules for versatile and economical PCR-based gene deletion and modification in Saccharomyces cerevisiae

20 March 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4224642

X-linked dyskeratosis congenita is caused by mutations in a highly conserved gene with putative nucleolar functions

20 March 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4224642

Pseudouridine in RNA: what, where, how, and why

20 March 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4224642

The RNA Modification Database, RNAMDB: 2011 update

20 March 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4224642

Major identity determinants for enzymatic formation of ribothymidine and pseudouridine in the T psi-loop of yeast tRNAs

20 March 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4224642

Bidirectional promoters generate pervasive transcription in yeast

20 March 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4224642

tRNAdb 2009: compilation of tRNA sequences and tRNA genes

7 April 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4224642

Thermodynamic contribution and nearest-neighbor parameters of pseudouridine-adenosine base pairs in oligoribonucleotides

7 April 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4224642

Characterization and comparison of human nuclear and cytosolic editomes

29 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4224642

Rate-limiting steps in yeast protein translation

29 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4224642

Tiling genomes of pathogenic viruses identifies potent antiviral shRNAs and reveals a role for secondary structure in shRNA efficacy

29 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4224642

Small nucleolar RNA 42 acts as an oncogene in lung tumorigenesis

29 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4224642

Converting nonsense codons into sense codons by targeted pseudouridylation

29 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4224642

U2 snRNA is inducibly pseudouridylated at novel sites by Pus7p and snR81 RNP.

29 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4224642

Genome-wide identification of human RNA editing sites by parallel DNA capturing and sequencing

29 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4224642

Coding-sequence determinants of gene expression in Escherichia coli

29 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4224642

Structural and functional roles of the N1- and N3-protons of psi at tRNA's position 39

29 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4224642

Ribosomal pausing during translation of an RNA pseudoknot

29 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4224642

New bioinformatic tools for analysis of nucleotide modifications in eukaryotic rRNA.

29 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4224642

Four newly located pseudouridylate residues in Escherichia coli 23S ribosomal RNA are all at the peptidyltransferase center: analysis by the application of a new sequencing technique.

2 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4224642

Properties of a U1/mRNA 5' splice site duplex containing pseudouridine as measured by thermodynamic and NMR methods.

2 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4224642

Preparation of yeast RNA.

2 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4224642

1H-15N NMR studies of Escherichia coli tRNA(Phe) from hisT mutants: a structural role for pseudouridine

27 November 2018

1 reference

12 December 2020

An RNA model system for investigation of pseudouridine stabilization of the codon-anticodon interaction in tRNALys, tRNAHis and tRNATyr

1 reference

12 December 2020

Ribonucleic acids from yeast which contain a fifth nucleotide

1 reference

12 December 2020

Crystal structure of unmodified tRNA(Gln) complexed with glutaminyl-tRNA synthetase and ATP suggests a possible role for pseudo-uridines in stabilization of RNA structure

1 reference

12 December 2020

Additional modules for versatile and economical PCR-based gene deletion and modification in Saccharomyces cerevisiae

1 reference

Crossref

https://api.crossref.org/works/10.1038%2FNATURE13802

7 January 2021

inferred from DOI database lookup

Cutadapt removes adapter sequences from high-throughput sequencing reads

1 reference

Crossref

https://api.crossref.org/works/10.1038%2FNATURE13802

7 January 2021

inferred from DOI database lookup

Matplotlib: A 2D Graphics Environment

1 reference

Crossref

https://api.crossref.org/works/10.1038%2FNATURE13802

7 January 2021

inferred from DOI database lookup

Identifiers

DOI

10.1038/NATURE13802

2 references

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:25192136%20AND%20SRC:MED&resulttype=core&format=json

Dimensions Publication ID

1 June 2020

1025486054

0 references

1 reference

2 references

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:25192136%20AND%20SRC:MED&resulttype=core&format=json

1 June 2020

2 references

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:25192136%20AND%20SRC:MED&resulttype=core&format=json