Accurate data processing improves the reliability of Affymetrix gene expression profiles from FFPE samples.

ABSTRACT: Formalin fixed paraffin-embedded (FFPE) tumor specimens are the conventionally archived material in clinical practice, representing an invaluable tissue source for biomarkers development, validation and routine implementation. For many prospective clinical trials, this material has been collected allowing for a prospective-retrospective study design which represents a successful strategy to define clinical utility for candidate markers. Gene expression data can be obtained even from FFPE specimens with the broadly used Affymetrix HG-U133 Plus 2.0 microarray platform. Nevertheless, important major discrepancies remain in expression data obtained from FFPE compared to fresh-frozen samples, prompting the need for appropriate data processing which could help to obtain more consistent results i

SUBMITTER: Callari M 

PROVIDER: S-EPMC3906036 | biostudies-literature | 2014

REPOSITORIES: biostudies-literature