(Q33742638)

29 July 2017

title

Separating homeologs by phasing in the tetraploid wheat transcriptome (English)

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29 July 2017

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12

Jorge Dubcovsky

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29 July 2017

10

Eduard Akhunov

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29 July 2017

Cristobal Uauy

11

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author name string

Ksenia V Krasileva

1

1 reference

29 July 2017

Vince Buffalo

2

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29 July 2017

Paul Bailey

3

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29 July 2017

Stephen Pearce

4

1 reference

29 July 2017

Sarah Ayling

5

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29 July 2017

Facundo Tabbita

6

1 reference

29 July 2017

Marcelo Soria

7

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29 July 2017

Shichen Wang

8

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29 July 2017

IWGS Consortium

9

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29 July 2017

publication date

25 June 2013

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29 July 2017

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29 July 2017

volume

14

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29 July 2017

issue

6

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29 July 2017

page(s)

R66

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describes a project that uses

29 July 2017

MIRA

object named as

MIRA

1 reference

CZ Software Mentions: A large dataset of software mentions in the biomedical literature

exact match

https://scigraph.springernature.com/pub.10.1186/gb-2013-14-6-r66

0 references

cites work

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Consequences of normalizing transcriptomic and genomic libraries of plant genomes using a duplex-specific nuclease and tetramethylammonium chloride

21 June 2018

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Analysis of the bread wheat genome using whole-genome shotgun sequencing

21 June 2018

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Genome evolution due to allopolyploidization in wheat

21 June 2018

1 reference

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Transcriptome-scale homoeolog-specific transcript assemblies of bread wheat.

21 June 2018

1 reference

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21 June 2018

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21 June 2018

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Optimizing de novo common wheat transcriptome assembly using short-read RNA-Seq data

21 June 2018

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Optimization of de novo transcriptome assembly from high-throughput short read sequencing data improves functional annotation for non-model organisms

21 June 2018

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Cutoffs and k-mers: implications from a transcriptome study in allopolyploid plants

21 June 2018

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Oases: robust de novo RNA-seq assembly across the dynamic range of expression levels

21 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4053977

Combining SNP discovery from next-generation sequencing data with bulked segregant analysis (BSA) to fine-map genes in polyploid wheat

21 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4053977

Accelerated Profile HMM Searches

21 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4053977

Effect of the down-regulation of the high Grain Protein Content (GPC) genes on the wheat transcriptome during monocarpic senescence

21 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4053977

Full-length transcriptome assembly from RNA-Seq data without a reference genome

21 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4053977

Identification and characterization of wheat long non-protein coding RNAs responsive to powdery mildew infection and heat stress by using microarray analysis and SBS sequencing

21 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4053977

Strobe sequence design for haplotype assembly

21 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4053977

Population genomics and local adaptation in wild isolates of a model microbial eukaryote

21 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4053977

Haplotype-resolved genome sequencing of a Gujarati Indian individual.

21 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4053977

De novo assembly and analysis of RNA-seq data.

21 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4053977

Small RNAs, DNA methylation and transposable elements in wheat

21 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4053977

The Pfam protein families database

21 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4053977

A modified TILLING approach to detect induced mutations in tetraploid and hexaploid wheat

21 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4053977

The role of hybridization in plant speciation

21 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4053977

TriFLDB: a database of clustered full-length coding sequences from Triticeae with applications to comparative grass genomics

21 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4053977

Evolutionary genetics of genome merger and doubling in plants

21 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4053977

A physical map of the 1-gigabase bread wheat chromosome 3B.

21 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4053977

Wheat FT protein regulates VRN1 transcription through interactions with FDL2.

21 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4053977

Contrasting rates of evolution in Pm3 loci from three wheat species and rice

21 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4053977

Genome plasticity a key factor in the success of polyploid wheat under domestication

21 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4053977

Cd-hit: a fast program for clustering and comparing large sets of protein or nucleotide sequences

21 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4053977

BAC libraries of Triticum urartu, Aegilops speltoides and Ae. tauschii, the diploid ancestors of polyploid wheat

21 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4053977

The transcriptional landscape of the mammalian genome

21 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4053977

Ancient haplotypes resulting from extensive molecular rearrangements in the wheat A genome have been maintained in species of three different ploidy levels

21 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4053977

Automated generation of heuristics for biological sequence comparison

21 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4053977

Deletion polymorphism in wheat chromosome regions with contrasting recombination rates

21 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4053977

Widespread paleopolyploidy in model plant species inferred from age distributions of duplicate genes

21 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4053977

Ancient polyploidization predating divergence of the cereals, and its consequences for comparative genomics

21 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4053977

Using the miraEST assembler for reliable and automated mRNA transcript assembly and SNP detection in sequenced ESTs

21 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4053977

Tandem and segmental gene duplication and recombination in the evolution of plant disease resistance gene

21 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4053977

Synteny perturbations between wheat homoeologous chromosomes caused by locus duplications and deletions correlate with recombination rates

21 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4053977

Unravelling angiosperm genome evolution by phylogenetic analysis of chromosomal duplication events

21 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4053977

Genes encoding plastid acetyl-CoA carboxylase and 3-phosphoglycerate kinase of the Triticum/Aegilops complex and the evolutionary history of polyploid wheat

21 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4053977

Comprehensive analysis of amino acid and nucleotide composition in eukaryotic genomes, comparing genes and pseudogenes

21 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4053977

BLAT—The BLAST-Like Alignment Tool

21 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4053977

Variation in repeated nucleotide sequences sheds light on the phylogeny of the wheat B and G genomes

21 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4053977

CAP3: A DNA sequence assembly program

21 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4053977

Basic local alignment search tool

21 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4053977

Molecular evidence for Triticum speltoides as a B-genome progenitor of wheat (Triticum aestivum).

21 June 2018

1 reference

https://api.crossref.org/works/10.1186%2FGB-2013-14-6-R66

Megabase level sequencing reveals contrasted organization and evolution patterns of the wheat gene and transposable element spaces

21 January 2018

1 reference

https://api.crossref.org/works/10.1186%2FGB-2013-14-6-R66

Frequent gene movement and pseudogene evolution is common to the large and complex genomes of wheat, barley, and their relatives

21 January 2018

1 reference

https://api.crossref.org/works/10.1186%2FGB-2013-14-6-R66

Characterizing the composition and evolution of homoeologous genomes in hexaploid wheat through BAC-end sequencing on chromosome 3B.

21 January 2018

1 reference

https://api.crossref.org/works/10.1186%2FGB-2013-14-6-R66

HapCUT: an efficient and accurate algorithm for the haplotype assembly problem

21 January 2018

1 reference

https://api.crossref.org/works/10.1186%2FGB-2013-14-6-R66

Comparative analysis of syntenic genes in grass genomes reveals accelerated rates of gene structure and coding sequence evolution in polyploid wheat

21 January 2018

1 reference

https://api.crossref.org/works/10.1186%2FGB-2013-14-6-R66

The evolution of polyploid wheats: identification of the A genome donor species

21 January 2018

1 reference

PubMed

https://pubmed.ncbi.nlm.nih.gov/23800085

inferred from PubMed ID database lookup

12 December 2020

based on heuristic

Identifiers

DOI

10.1186/GB-2013-14-6-R66

1 reference

Dimensions Publication ID

29 July 2017

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1 reference

29 July 2017

1 reference