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

Research output: Contribution to journalArticlepeer-review

120 Citations (Scopus)

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 languageEnglish
Article numberR54
JournalGenome Biology
Volume6
Issue number6
DOIs
Publication statusPrint publication - May 2005
Externally publishedYes

Keywords

  • Animal Genetics and Genomics
  • Bioinformatics
  • Evolutionary Biology
  • Golden Promise
  • Human Genetics
  • International Collaborative Project
  • Microbial Genetics and Genomics
  • Mutation Surveyor Software
  • Oregon Wolfe Barley
  • Plant Genetics & Genomics
  • Sequence Polymorphism

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