(Q24545644)

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:15082561%20AND%20SRC:MED&resulttype=core&format=json

27 December 2019

title

Large retrotransposon derivatives: abundant, conserved but nonautonomous retroelements of barley and related genomes (English)

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:15082561%20AND%20SRC:MED&resulttype=core&format=json

27 December 2019

0 references

1 reference

1

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:15082561%20AND%20SRC:MED&resulttype=core&format=json

27 December 2019

Carlos M Vicient

2

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:15082561%20AND%20SRC:MED&resulttype=core&format=json

27 December 2019

Alan H. Schulman

6

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:15082561%20AND%20SRC:MED&resulttype=core&format=json

27 December 2019

author name string

Ofer Peleg

3

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:15082561%20AND%20SRC:MED&resulttype=core&format=json

27 December 2019

Kesara Anamthawat-Jonsson

4

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:15082561%20AND%20SRC:MED&resulttype=core&format=json

27 December 2019

Alexander Bolshoy

5

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:15082561%20AND%20SRC:MED&resulttype=core&format=json

27 December 2019

language of work or name

English

0 references

publication date

1 March 2004

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:15082561%20AND%20SRC:MED&resulttype=core&format=json

27 December 2019

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:15082561%20AND%20SRC:MED&resulttype=core&format=json

27 December 2019

volume

166

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:15082561%20AND%20SRC:MED&resulttype=core&format=json

27 December 2019

issue

3

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:15082561%20AND%20SRC:MED&resulttype=core&format=json

27 December 2019

page(s)

1437-1450

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:15082561%20AND%20SRC:MED&resulttype=core&format=json

CLUSTAL W: improving the sensitivity of progressive multiple sequence alignment through sequence weighting, position-specific gap penalties and weight matrix choice

27 December 2019

cites work

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1470764

Optimal computer folding of large RNA sequences using thermodynamics and auxiliary information

24 March 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1470764

Sequence logos: a new way to display consensus sequences

24 March 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1470764

Sequence and comparative analysis of the chicken genome provide unique perspectives on vertebrate evolution

24 March 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1470764

Structure of SL4 RNA from the HIV-1 packaging signal

24 March 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1470764

Secondary structure prediction for aligned RNA sequences

24 March 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1470764

HIV-1: fifteen proteins and an RNA

24 March 2017

2 references

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1470764

24 March 2017

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1470764

copia-like retrotransposons are ubiquitous among plants

7 April 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1470764

Using CLUSTAL for multiple sequence alignments

24 March 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1470764

On finding all suboptimal foldings of an RNA molecule

7 April 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1470764

Information content of binding sites on nucleotide sequences

7 April 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1470764

Dasheng and RIRE2. A nonautonomous long terminal repeat element and its putative autonomous partner in the rice genome

7 April 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1470764

Dasheng: a recently amplified nonautonomous long terminal repeat element that is a major component of pericentromeric regions in rice

27 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1470764

Shannon information theoretic computation of synonymous codon usage biases in coding regions of human and mouse genomes

27 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1470764

A high-density cytogenetic map of the Aegilops tauschii genome incorporating retrotransposons and defense-related genes: insights into cereal chromosome structure and function.

27 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1470764

Sequence organization of barley centromeres

27 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1470764

Terminal-repeat retrotransposons in miniature (TRIM) are involved in restructuring plant genomes

27 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1470764

Abundance, distribution, and transcriptional activity of repetitive elements in the maize genome

27 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1470764

In vitro analysis of human immunodeficiency virus type 1 minus-strand strong-stop DNA synthesis and genomic RNA processing.

27 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1470764

The human endogenous retrovirus K Rev response element coincides with a predicted RNA folding region

27 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1470764

Application of BARE-1 retrotransposon markers to the mapping of a major resistance gene for net blotch in barley

27 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1470764

A contiguous 66-kb barley DNA sequence provides evidence for reversible genome expansion.

27 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1470764

Genome evolution of wild barley (Hordeum spontaneum) by BARE-1 retrotransposon dynamics in response to sharp microclimatic divergence.

27 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1470764

27 September 2017

Plant retrotransposons

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1470764

Phylogenetic analysis of the Triticeae (Poaceae) based on rpoA sequence data.

27 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1470764

Nested retrotransposons in the intergenic regions of the maize genome

27 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1470764

Sequence variability within the tobacco retrotransposon Tnt1 population.

27 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1470764

Phylogenetic relationships of the monogenomic species of the wheat tribe, Triticeae (Poaceae), inferred from nuclear rDNA (internal transcribed spacer) sequences

27 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1470764

An improved PCR method for walking in uncloned genomic DNA.

27 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1470764

tRNAs as primer of reverse transcriptases

27 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1470764

An indicator gene to demonstrate intracellular transposition of defective retroviruses

27 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1470764

Ty1-copia group retrotransposons are ubiquitous and heterogeneous in higher plants

27 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1470764

Nonautonomous transposable elements in prokaryotes and eukaryotes

27 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1470764

Identification and characterization of novel retrotransposons of the gypsy type in rice

27 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1470764

The core domain of retrotransposon integrase in Hordeum: predicted structure and evolution.

30 May 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1470764

Gypsy-like retrotransposons are widespread in the plant kingdom.

30 May 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1470764

BARE-1 insertion site preferences and evolutionary conservation of RNA and cDNA processing sites.

30 May 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1470764

Phylogenetic analysis of a retrotransposon with implications for strong evolutionary constraints on reverse transcriptase

30 May 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1470764

Molecular analysis of a putative transposable retroelement from the Zea genus with internal clusters of tandem repeats

30 May 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1470764

17 Predicting optimal and suboptimal secondary structure for RNA

30 May 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1470764

RNA secondary structure and sequence conservation in C1 region of human immunodeficiency virus type 1 env gene

30 May 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1470764

Analysis of a contiguous 211 kb sequence in diploid wheat (Triticum monococcum L.) reveals multiple mechanisms of genome evolution.

28 November 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1470764

Analysis of plus-strand primer selection, removal, and reutilization by retroviral reverse transcriptases.

28 November 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1470764

Retrotransposon BARE-1 is a major, dispersed component of the barley (Hordeum vulgare L.) genome.

28 November 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1470764

RNA multi-structure landscapes. A study based on temperature dependent partition functions.

28 November 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1470764

Role of RNA primers in initiation of minus-strand and plus-strand DNA synthesis of the yeast retrotransposon Ty1

28 November 2018

1 reference

12 December 2020

Retrotransposon BARE-1 and Its Role in Genome Evolution in the Genus Hordeum

1 reference

12 December 2020

Active retrotransposons are a common feature of grass genomes

1 reference

12 December 2020

Prediction of RNA secondary structure by energy minimization

1 reference

12 December 2020

GenomicIn Situ Hybridization for Whole Chromosome and Genome Analysis

1 reference

https://api.crossref.org/works/10.1534%2FGENETICS.166.3.1437

7 January 2021

Statistics of RNA secondary structures

1 reference

https://api.crossref.org/works/10.1534%2FGENETICS.166.3.1437

7 January 2021

Origin and evolution of retroelements based upon their reverse transcriptase sequences

1 reference

https://api.crossref.org/works/10.1534%2FGENETICS.166.3.1437

7 January 2021

Measuring molecular information

1 reference

https://api.crossref.org/works/10.1534%2FGENETICS.166.3.1437

7 January 2021

BARE-1, a copia-like retroelement in barley (Hordeum vulgare L.).

1 reference

https://api.crossref.org/works/10.1534%2FGENETICS.166.3.1437

7 January 2021

Fast folding and comparison of RNA secondary structures

1 reference

https://api.crossref.org/works/10.1534%2FGENETICS.166.3.1437

7 January 2021

Dynamic copy choice: steady state between murine leukemia virus polymerase and polymerase-dependent RNase H activity determines frequency of in vivo template switching

1 reference

https://api.crossref.org/works/10.1534%2FGENETICS.166.3.1437

7 January 2021

Envelope-class retrovirus-like elements are widespread, transcribed and spliced, and insertionally polymorphic in plants

1 reference

https://api.crossref.org/works/10.1534%2FGENETICS.166.3.1437

7 January 2021

Fidelity of retrotransposon replication

1 reference

https://api.crossref.org/works/10.1534%2FGENETICS.166.3.1437

7 January 2021

The genome sizes of Hordeum species show considerable variation

1 reference

https://api.crossref.org/works/10.1534%2FGENETICS.166.3.1437

7 January 2021

On Information and Sufficiency

1 reference

https://api.crossref.org/works/10.1534%2FGENETICS.166.3.1437

7 January 2021

10.1534/GENETICS.166.3.1437

Identifiers

DOI

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:15082561%20AND%20SRC:MED&resulttype=core&format=json

27 December 2019

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:15082561%20AND%20SRC:MED&resulttype=core&format=json

27 December 2019

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:15082561%20AND%20SRC:MED&resulttype=core&format=json