Effect of agonal and postmortem factors on gene expression profile: quality control in microarray analyses of postmortem human brain.

Author(s): Tomita H, Vawter MP, Walsh DM, Evans SJ, Choudary PV, Li J, Overman KM, Atz ME, Myers RM, Jones EG, Watson SJ, Akil H, Bunney WE Jr

Publication: Biol Psychiatry, 2004, Vol. 15, Page 346

PubMed ID: 14960286 PubMed Review Paper? No

Purpose of Paper

Conclusion of Paper

Studies

1. Study Purpose

   The purpose of this study was to evaluate the effect of agonal state, gender, age, psychiatric diagnosis, brain pH, postmortem interval, and storage duration on the performance of RNA in microarray analyses.

   Summary of Findings:

   The authors report that brain pH, which was on average lower in patients with prolonged agonal states than those that experienced rapid deaths, was correlated with RNA integrity and microarray percent present calls. Gene expression profiles were more influenced by agonal factors than age, gender, psychiatric diagnosis, postmortem interval, or specimen storage duration.

   Biospecimens

   • Tissue - Brain

   Preservative Types

   • Frozen

   Diagnoses:

   • Bipolar Disorder
   • Autopsy
   • Not specified
   • Depression

   Platform:

   Analyte	Technology Platform
   RNA	Electrophoresis
   RNA	DNA microarray

   Pre-analytical Factors:

   Classification	Pre-analytical Factor	Value(s)
   Biospecimen Aliquots and Components	pH	6.06 - 7.20
   Preaquisition	Cause of death	Rapid death Prolonged agonal state
   Preaquisition	Patient age	18 - 73 years
   Storage	Storage duration	3 - 112 months
   Preaquisition	Diagnosis/ patient condition	Bipolar disorder Major depressive disorder No mood disorder
   Preaquisition	Postmortem interval	6.5 - 41.3 h
   Preaquisition	Patient gender	Female Male

   View more