Detection and validation of single feature polymorphisms using RNA expression data from a rice genome array.

ABSTRACT:

Background

A large number of genetic variations have been identified in rice. Such variations must in many cases control phenotypic differences in abiotic stress tolerance and other traits. A single feature polymorphism (SFP) is an oligonucleotide array-based polymorphism which can be used for identification of SNPs or insertion/deletions (INDELs) for high throughput genotyping and high density mapping. Here we applied SFP markers to a lingering question about the source of salt tolerance in a particular rice recombinant inbred line (RIL) derived from a salt tolerant and salt sensitive parent.

Results

Expression data obtained by hybridizing RNA to an oligonucleotide array were analyzed using a statistical method called robustified projection pursuit (RPP). By applying the RP

SUBMITTER: Kim SH 

PROVIDER: S-EPMC2697985 | biostudies-literature | 2009 May

REPOSITORIES: biostudies-literature