Genome-wide scanning of genetic polymorphisms

摘要

A method and compositions are provided for analyzing whole genomes, or representations thereof, to determine associations between traits and genotypes. Sets of hybridization probes (referred to herein as “isostringency probes”) are provided that are complementary to sites uniformly spaced throughout unique sequence regions a genome, or target polynucleotide, and that are designed for facile isolation of subsets that form perfectly matched duplexes with the genome or target polynucleotide being analyzed. The nucleotide sequences of the isostringency probes are selected to ensure that the probes have substantially identical duplex stabilities. In accordance with tie method of the invention, representations of a genome are attached to solid phase supports and are used to capture isostringency probes forming perfectly matched duplexes. The captured probes are then released and applied to an array of complementary sequences for detection.