GeneRegionScan: a Bioconductor package for probe-level analysis of specific, small regions of the genome.

ABSTRACT:

Summary

Whole-genome microarrays allow us to interrogate the entire transcriptome of a cell. Affymetrix microarrays are constructed using several probes that match to different regions of a gene and a summarization step reduces this complexity into a single value, representing the expression level of the gene or the expression level of an exon in the case of exon arrays. However, this simplification eliminates information that might be useful when focusing on specific genes of interest. To address these limitations, we present a software package for the R platform that allows detailed analysis of expression at the probe level. The package matches the probe sequences against a target gene sequence (either mRNA or DNA) and shows the expression levels of each probe along the gene. It

SUBMITTER: Folkersen L 

PROVIDER: S-EPMC2712334 | biostudies-literature | 2009 Aug

REPOSITORIES: biostudies-literature