Alternative mapping of probes to genes for Affymetrix chips.

ABSTRACT:

Background

Short oligonucleotide arrays have several probes measuring the expression level of each target transcript. Therefore the selection of probes is a key component for the quality of measurements. However, once probes have been selected and synthesized on an array, it is still possible to re-evaluate the results using an updated mapping of probes to genes, taking into account the latest biological knowledge available.

Methods

We investigated how probes found on recent commercial microarrays for human genes (Affymetrix HG-U133A) were matching a recent curated collection of human transcripts: the NCBI RefSeq database. We also built mappings and used them in place of the original probe to genes associations provided by the manufacturer of the arrays.

Results

In a

SUBMITTER: Gautier L 

PROVIDER: S-EPMC514699 | biostudies-literature | 2004 Aug

REPOSITORIES: biostudies-literature