Home
Random
Nearby
Log in
Settings
Donate
About Wikidata
Disclaimers
Search
(Q24673501)
Watch
English
Structured RNAs in the ENCODE selected regions of the human genome
scientific article
In more languages
edit
Statements
instance of
scholarly article
0 references
title
Structured RNAs in the ENCODE selected regions of the human genome
(English)
0 references
author
Alexandre Reymond
series ordinal
22
0 references
France Denoeud
series ordinal
14
0 references
Catherine Ucla
series ordinal
11
0 references
Philipp Kapranov
series ordinal
17
0 references
Carine Wyss
series ordinal
12
0 references
Jorg Drenkow
series ordinal
16
0 references
Stefan Washietl
series ordinal
1
0 references
Peter F. Stadler
series ordinal
24
0 references
Roderic Guigó i Serra
series ordinal
19
0 references
Andreas R Gruber
object named as
Andreas R Gruber
series ordinal
5
0 references
Julien Lagarde
object named as
Julien Lagarde
series ordinal
15
0 references
Kristin Reiche
object named as
Kristin Reiche
series ordinal
9
0 references
Jana Hertel
object named as
Jana Hertel
series ordinal
7
0 references
Jakob Skou Pedersen
object named as
Jakob S Pedersen
series ordinal
2
0 references
Jan Korbel
object named as
Jan O Korbel
series ordinal
3
0 references
Andrea Tanzer
object named as
Andrea Tanzer
series ordinal
10
0 references
Jörg Hackermüller
object named as
Jörg Hackermüller
series ordinal
6
0 references
Thomas R. Gingeras
object named as
Thomas R Gingeras
series ordinal
18
0 references
Ivo L. Hofacker
object named as
Ivo L Hofacker
series ordinal
23
0 references
Stilianos Antonarakis
object named as
Stylianos E Antonarakis
series ordinal
13
0 references
Mark Bender Gerstein
series ordinal
21
object named as
Mark B Gerstein
0 references
Michael P. Snyder
series ordinal
20
object named as
Michael Snyder
0 references
Manja Lindemeyer
series ordinal
8
object named as
Manja Lindemeyer
0 references
author name string
Claudia Stocsits
series ordinal
4
0 references
language of work or name
English
0 references
publication date
June 2007
0 references
published in
Genome Research
0 references
volume
17
0 references
page(s)
852-64
0 references
issue
6
0 references
cites work
Identification and analysis of functional elements in 1% of the human genome by the ENCODE pilot project
1 reference
stated in
PubMed Central
reference URL
https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1891344
retrieved
7 April 2017
Prominent use of distal 5' transcription start sites and discovery of a large number of additional exons in ENCODE regions
1 reference
stated in
PubMed Central
reference URL
https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1891344
retrieved
7 April 2017
GENCODE: producing a reference annotation for ENCODE
1 reference
stated in
PubMed Central
reference URL
https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1891344
retrieved
7 April 2017
Thousands of corresponding human and mouse genomic regions unalignable in primary sequence contain common RNA structure
1 reference
stated in
PubMed Central
reference URL
https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1891344
retrieved
7 April 2017
The Evf-2 noncoding RNA is transcribed from the Dlx-5/6 ultraconserved region and functions as a Dlx-2 transcriptional coactivator
1 reference
stated in
PubMed Central
reference URL
https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1891344
retrieved
7 April 2017
Identification and classification of conserved RNA secondary structures in the human genome
1 reference
stated in
PubMed Central
reference URL
https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1891344
retrieved
7 April 2017
A third approach to gene prediction suggests thousands of additional human transcribed regions
1 reference
stated in
PubMed Central
reference URL
https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1891344
retrieved
7 April 2017
Statistical evidence for conserved, local secondary structure in the coding regions of eukaryotic mRNAs and pre-mRNAs
1 reference
stated in
PubMed Central
reference URL
https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1891344
retrieved
7 April 2017
Evidence for selection on synonymous mutations affecting stability of mRNA secondary structure in mammals
1 reference
stated in
PubMed Central
reference URL
https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1891344
retrieved
7 April 2017
Evolutionarily conserved elements in vertebrate, insect, worm, and yeast genomes
1 reference
stated in
PubMed Central
reference URL
https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1891344
retrieved
7 April 2017
Examples of the complex architecture of the human transcriptome revealed by RACE and high-density tiling arrays
1 reference
stated in
PubMed Central
reference URL
https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1891344
retrieved
7 April 2017
Fast and reliable prediction of noncoding RNAs
1 reference
stated in
PubMed Central
reference URL
https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1891344
retrieved
7 April 2017
Rfam: annotating non-coding RNAs in complete genomes
1 reference
stated in
PubMed Central
reference URL
https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1891344
retrieved
7 April 2017
A comprehensive comparison of comparative RNA structure prediction approaches
1 reference
stated in
PubMed Central
reference URL
https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1891344
retrieved
7 April 2017
Pfold: RNA secondary structure prediction using stochastic context-free grammars
1 reference
stated in
PubMed Central
reference URL
https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1891344
retrieved
7 April 2017
Distinct RNA motifs are important for coactivation of steroid hormone receptors by steroid receptor RNA activator (SRA).
1 reference
stated in
PubMed Central
reference URL
https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1891344
retrieved
7 April 2017
The human genome browser at UCSC
1 reference
stated in
PubMed Central
reference URL
https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1891344
retrieved
7 April 2017
Untranslated regions of mRNAs
1 reference
stated in
PubMed Central
reference URL
https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1891344
retrieved
7 April 2017
Noncoding RNA gene detection using comparative sequence analysis
1 reference
stated in
PubMed Central
reference URL
https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1891344
retrieved
7 April 2017
Intergenic transcription is required to repress the Saccharomyces cerevisiae SER3 gene
1 reference
stated in
PubMed Central
reference URL
https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1891344
retrieved
7 April 2017
The transcriptional landscape of the mammalian genome
1 reference
stated in
PubMed Central
reference URL
https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1891344
retrieved
7 April 2017
Analysis of the mouse transcriptome based on functional annotation of 60,770 full-length cDNAs
1 reference
stated in
PubMed Central
reference URL
https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1891344
retrieved
7 April 2017
A framework for collaborative analysis of ENCODE data: making large-scale analyses biologist-friendly
1 reference
stated in
PubMed Central
reference URL
https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1891344
retrieved
7 April 2017
Identification of hundreds of conserved and nonconserved human microRNAs
1 reference
stated in
PubMed Central
reference URL
https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1891344
retrieved
7 April 2017
Transcriptional maps of 10 human chromosomes at 5-nucleotide resolution
1 reference
stated in
PubMed Central
reference URL
https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1891344
retrieved
7 April 2017
Pairwise local structural alignment of RNA sequences with sequence similarity less than 40%
1 reference
stated in
PubMed Central
reference URL
https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1891344
retrieved
7 April 2017
The steroid receptor RNA activator is the first functional RNA encoding a protein
2 references
stated in
PubMed Central
stated in
PubMed Central
reference URL
https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1891344
retrieved
7 April 2017
Secondary structure prediction for aligned RNA sequences
1 reference
stated in
PubMed Central
reference URL
https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1891344
retrieved
7 April 2017
Antisense transcription in the mammalian transcriptome
1 reference
stated in
PubMed Central
reference URL
https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1891344
retrieved
7 April 2017
Aligning multiple genomic sequences with the threaded blockset aligner
1 reference
stated in
PubMed Central
reference URL
https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1891344
retrieved
7 April 2017
Global identification of human transcribed sequences with genome tiling arrays
1 reference
stated in
PubMed Central
reference URL
https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1891344
retrieved
7 April 2017
Analyses of deep mammalian sequence alignments and constraint predictions for 1% of the human genome
1 reference
stated in
PubMed Central
reference URL
https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1891344
retrieved
28 September 2017
The H19 gene: regulation and function of a non-coding RNA.
1 reference
stated in
PubMed Central
reference URL
https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1891344
retrieved
28 September 2017
Detection of non-coding RNAs on the basis of predicted secondary structure formation free energy change
1 reference
stated in
PubMed Central
reference URL
https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1891344
retrieved
28 September 2017
Rapid evolution of noncoding RNAs: lack of conservation does not mean lack of function
1 reference
stated in
PubMed Central
reference URL
https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1891344
retrieved
28 September 2017
Influence of RNA secondary structure on the pre-mRNA splicing process
1 reference
stated in
PubMed Central
reference URL
https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1891344
retrieved
28 September 2017
A comparative method for finding and folding RNA secondary structures within protein-coding regions
1 reference
stated in
PubMed Central
reference URL
https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1891344
retrieved
28 September 2017
Consensus folding of aligned sequences as a new measure for the detection of functional RNAs by comparative genomics
1 reference
stated in
PubMed Central
reference URL
https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1891344
retrieved
28 September 2017
RNA regulation: a new genetics?
1 reference
stated in
PubMed Central
reference URL
https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1891344
retrieved
28 September 2017
Reprogrammed genetic decoding in cellular gene expression.
1 reference
stated in
PubMed Central
reference URL
https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1891344
retrieved
28 September 2017
Challenging the dogma: the hidden layer of non‐protein‐coding RNAs in complex organisms
1 reference
stated in
PubMed Central
reference URL
https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1891344
retrieved
28 September 2017
Widespread selection for local RNA secondary structure in coding regions of bacterial genes
1 reference
stated in
PubMed Central
reference URL
https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1891344
retrieved
28 September 2017
No evidence that mRNAs have lower folding free energies than random sequences with the same dinucleotide distribution
1 reference
stated in
PubMed Central
reference URL
https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1891344
retrieved
28 September 2017
RNA secondary structure prediction using stochastic context-free grammars and evolutionary history
1 reference
stated in
PubMed Central
reference URL
https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1891344
retrieved
28 September 2017
RNAs mediating cotranslational insertion of selenocysteine in eukaryotic selenoproteins.
1 reference
stated in
PubMed Central
reference URL
https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1891344
retrieved
28 September 2017
Structural RNA has lower folding energy than random RNA of the same dinucleotide frequency
1 reference
stated in
PubMed Central
reference URL
https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1891344
retrieved
30 May 2018
An evolutionary model for protein-coding regions with conserved RNA structure
1 reference
stated in
PubMed Central
reference URL
https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1891344
retrieved
30 May 2018
Evolutionary patterns of non-coding RNAs
1 reference
stated in
PubMed Central
reference URL
https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1891344
retrieved
28 November 2018
Mapping of conserved RNA secondary structures predicts thousands of functional noncoding RNAs in the human genome
1 reference
stated in
PubMed Central
reference URL
https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1891344
retrieved
28 November 2018
Evidence that functional transcription units cover at least half of the human genome.
1 reference
stated in
PubMed Central
reference URL
https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1891344
retrieved
28 November 2018
Identifiers
DOI
10.1101/GR.5650707
0 references
PMCID
1891344
0 references
PubMed ID
17568003
0 references
ResearchGate publication ID
6269160
0 references
Sitelinks
Wikipedia
(0 entries)
edit
Wikibooks
(0 entries)
edit
Wikinews
(0 entries)
edit
Wikiquote
(0 entries)
edit
Wikisource
(0 entries)
edit
Wikiversity
(0 entries)
edit
Wikivoyage
(0 entries)
edit
Wiktionary
(0 entries)
edit
Multilingual sites
(0 entries)
edit
