(Q35108984)

6 August 2017

title

TASSEL-GBS: a high capacity genotyping by sequencing analysis pipeline (English)

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6 August 2017

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6 August 2017

Robert J Elshire

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Jeffrey C Glaubitz

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6 August 2017

Terry M Casstevens

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6 August 2017

Fei Lu

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6 August 2017

James Harriman

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6 August 2017

Qi Sun

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6 August 2017

language of work or name

English

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publication date

28 February 2014

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6 August 2017

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6 August 2017

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6 August 2017

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6 August 2017

page(s)

e90346

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Creative Commons CC0 License

6 August 2017

start time

28 February 2014

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April 2022 Public Data File from Crossref

copyrighted, dedicated to the public domain by copyright holder

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cites work

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9 July 2018

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9 July 2018

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9 July 2018

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The population structure and recent colonization history of Oregon threespine stickleback determined using restriction-site associated DNA-sequencing.

9 July 2018

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Adaptive evolution during an ongoing range expansion: the invasive bank vole (Myodes glareolus) in Ireland

9 July 2018

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RESTseq--efficient benchtop population genomics with RESTriction Fragment SEQuencing

9 July 2018

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Genotyping-by-sequencing (GBS): a novel, efficient and cost-effective genotyping method for cattle using next-generation sequencing

9 July 2018

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Sequence-based mapping of the polyploid wheat genome

9 July 2018

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Identification of SNPs in closely related Temperate Japonica rice cultivars using restriction enzyme-phased sequencing

9 July 2018

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9 July 2018

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9 July 2018

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9 July 2018

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Switchgrass genomic diversity, ploidy, and evolution: novel insights from a network-based SNP discovery protocol

9 July 2018

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Population genomic and genome-wide association studies of agroclimatic traits in sorghum

9 July 2018

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Population genomics based on low coverage sequencing: how low should we go?

9 July 2018

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9 July 2018

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9 July 2018

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How next-generation sequencing is transforming complex disease genetics

9 July 2018

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https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3938676

Accessing complex crop genomes with next-generation sequencing

9 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3938676

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9 July 2018

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Sequence-based genotyping for marker discovery and co-dominant scoring in germplasm and populations

9 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3938676

Maize HapMap2 identifies extant variation from a genome in flux.

9 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3938676

Development of high-density genetic maps for barley and wheat using a novel two-enzyme genotyping-by-sequencing approach

9 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3938676

Fast gapped-read alignment with Bowtie 2

9 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3938676

Genotype imputation with thousands of genomes

9 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3938676

Stacks: building and genotyping Loci de novo from short-read sequences

9 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3938676

GemSIM: general, error-model based simulator of next-generation sequencing data

9 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3938676

Reference genome-independent assessment of mutation density using restriction enzyme-phased sequencing.

9 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3938676

Inference of human population history from individual whole-genome sequences

9 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3938676

Genome-wide genetic marker discovery and genotyping using next-generation sequencing

9 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3938676

The variant call format and VCFtools

9 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3938676

A robust, simple genotyping-by-sequencing (GBS) approach for high diversity species

9 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3938676

A framework for variation discovery and genotyping using next-generation DNA sequencing data

9 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3938676

Multiplexed shotgun genotyping for rapid and efficient genetic mapping

9 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3938676

Ascertainment biases in SNP chips affect measures of population divergence

9 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3938676

Genotype imputation for genome-wide association studies

9 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3938676

Parent-independent genotyping for constructing an ultrahigh-density linkage map based on population sequencing.

9 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3938676

Population genomics of parallel adaptation in threespine stickleback using sequenced RAD tags

9 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3938676

Sequencing technologies - the next generation

9 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3938676

Genetic properties of the maize nested association mapping population

9 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3938676

The Sequence Alignment/Map format and SAMtools

9 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3938676

SNP detection for massively parallel whole-genome resequencing

9 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3938676

Rapid SNP discovery and genetic mapping using sequenced RAD markers

9 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3938676

Substantial biases in ultra-short read data sets from high-throughput DNA sequencing

9 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3938676

SNP discovery and allele frequency estimation by deep sequencing of reduced representation libraries

9 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3938676

Complexity reduction of polymorphic sequences (CRoPS): a novel approach for large-scale polymorphism discovery in complex genomes

9 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3938676

TASSEL: software for association mapping of complex traits in diverse samples

9 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3938676

Ascertainment bias in studies of human genome-wide polymorphism.

9 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3938676

Effects of ascertainment bias on recovering human demographic history.

9 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3938676

An SNP map of the human genome generated by reduced representation shotgun sequencing

9 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3938676

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

9 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3938676

The effect of RAD allele dropout on the estimation of genetic variation within and between populations.

9 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3938676

Effect of crop improvement on genetic diversity in oilseed Brassica rapa (turnip-rape) cultivars, detected by SSR markers

27 September 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3938676

Origin of extant domesticated sunflowers in eastern North America

27 September 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3938676

2b-RAD: a simple and flexible method for genome-wide genotyping

27 September 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3938676

Genome-wide association study of leaf architecture in the maize nested association mapping population

16 November 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3938676

Association genetics in crop improvement

16 November 2018

1 reference

PubMed

https://pubmed.ncbi.nlm.nih.gov/24587335

inferred from PubMed ID database lookup

12 December 2020

based on heuristic

Identifiers

DOI

10.1371/JOURNAL.PONE.0090346

1 reference

6 August 2017

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6 August 2017

1 reference