Single-feature polymorphism discovery in the barley transcriptome.

Nils Rostoks; Justin O. Borevitz; Peter E. Hedley; Joanne Russell; Sharon Mudie; Jenny Morris; Linda Cardle; David F. Marshall; Robbie Waugh

doi:0.1186/gb-2005-6-6-r54

Single-feature polymorphism discovery in the barley transcriptome.

Nils Rostoks, Justin O. Borevitz (Lead / Corresponding author), Peter E. Hedley, Joanne Russell, Sharon Mudie, Jenny Morris, Linda Cardle, David F. Marshall, Robbie Waugh (Lead / Corresponding author)

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Abstract

A probe-level model for analysis of GeneChip gene-expression data is presented which identified more than 10,000 single-feature polymorphisms (SFP) between two barley genotypes. The method has good sensitivity, as 67% of known single-nucleotide polymorphisms (SNP) were called as SFPs. This method is applicable to all oligonucleotide microarray data, accounts for SNP effects in gene-expression data and represents an efficient and versatile approach for highly parallel marker identification in large genomes.

Original language	English
Article number	R54
Number of pages	10
Journal	Genome Biology
Volume	6
Issue number	6
Early online date	11 May 2005
DOIs	https://doi.org/0.1186/gb-2005-6-6-r54
Publication status	Published - 1 Dec 2005

ASJC Scopus subject areas

Ecology, Evolution, Behavior and Systematics
Genetics
Cell Biology

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0.1186/gb-2005-6-6-r54Licence: CC BY

Publisher final version
© 2005 Rostoks et al.; licensee BioMed Central Ltd. This is an Open Access article distributed under the terms of the Creative Commons Attribution License (http://creativecommons.org/licenses/by/2.0), which permits unrestricted use, distribution, and reproduction in any medium, provided the original work is properly cited.
Final published version, 360 KBLicence: CC BY

Cite this

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title = "Single-feature polymorphism discovery in the barley transcriptome.",

abstract = "A probe-level model for analysis of GeneChip gene-expression data is presented which identified more than 10,000 single-feature polymorphisms (SFP) between two barley genotypes. The method has good sensitivity, as 67% of known single-nucleotide polymorphisms (SNP) were called as SFPs. This method is applicable to all oligonucleotide microarray data, accounts for SNP effects in gene-expression data and represents an efficient and versatile approach for highly parallel marker identification in large genomes.",

author = "Nils Rostoks and Borevitz, {Justin O.} and Hedley, {Peter E.} and Joanne Russell and Sharon Mudie and Jenny Morris and Linda Cardle and Marshall, {David F.} and Robbie Waugh",

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AU - Borevitz, Justin O.

AU - Hedley, Peter E.

AU - Russell, Joanne

AU - Mudie, Sharon

AU - Morris, Jenny

AU - Cardle, Linda

AU - Marshall, David F.

AU - Waugh, Robbie

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N2 - A probe-level model for analysis of GeneChip gene-expression data is presented which identified more than 10,000 single-feature polymorphisms (SFP) between two barley genotypes. The method has good sensitivity, as 67% of known single-nucleotide polymorphisms (SNP) were called as SFPs. This method is applicable to all oligonucleotide microarray data, accounts for SNP effects in gene-expression data and represents an efficient and versatile approach for highly parallel marker identification in large genomes.

AB - A probe-level model for analysis of GeneChip gene-expression data is presented which identified more than 10,000 single-feature polymorphisms (SFP) between two barley genotypes. The method has good sensitivity, as 67% of known single-nucleotide polymorphisms (SNP) were called as SFPs. This method is applicable to all oligonucleotide microarray data, accounts for SNP effects in gene-expression data and represents an efficient and versatile approach for highly parallel marker identification in large genomes.

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Single-feature polymorphism discovery in the barley transcriptome.

Abstract

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