Development of a versatile, target-oriented tiling microarray assay for measuring allele-specific gene expression

ABSTRACT: In the study of gene expression regulation in plants, it is often desirable to distinguish transcript pools derived from different alleles present in the same organism. We report here an oligonucleotide tiling microarray designed to specifically target 518 single nucleotide polymorphisms (SNPs) between the two sequenced rice (Oryza sativa) subspecies indica and japonica. The tiling array includes all pairs of 25-mer allele-specific probes interrogating each SNP by placing the polymorphic site at all 25 possible positions within the probe. Hybridization of the tiling array to a titration series in which the japonica- and indica-derived cDNA templates are mixed with altering proportions and development of a novel bioinformatic methodology allowed us to screen for diagnostic probe pairs for e

ORGANISM(S): Oryza sativa

SUBMITTER: Hang He 

PROVIDER: E-GEOD-20678 | biostudies-arrayexpress |

REPOSITORIES: biostudies-arrayexpress