Quality assessment metrics for whole genome gene expression profiling of paraffin embedded samples.

ABSTRACT:

Background

Formalin fixed, paraffin embedded tissues are most commonly used for routine pathology analysis and for long term tissue preservation in the clinical setting. Many institutions have large archives of Formalin fixed, paraffin embedded tissues that provide a unique opportunity for understanding genomic signatures of disease. However, genome-wide expression profiling of Formalin fixed, paraffin embedded samples have been challenging due to RNA degradation. Because of the significant heterogeneity in tissue quality, normalization and analysis of these data presents particular challenges. The distribution of intensity values from archival tissues are inherently noisy and skewed due to differential sample degradation raising two primary concerns; whether a highly skewed array

SUBMITTER: Mahoney DW 

PROVIDER: S-EPMC3626608 | biostudies-literature | 2013 Jan

REPOSITORIES: biostudies-literature