Screening for control genes in mouse hippocampus after transient forebrain ischemia using high-density oligonucleotide array.

Abstract:

:In conventional relative gene expression analysis (Northern blotting, RT-PCR, and in situ hybridization), housekeeping genes such as the glyceraldehyde-3-phosphate dehydrogenase (GAPDH) and beta-actin genes, whose expression levels are considered stable, have been used as control genes for normalization of RNA quantitation. However, it has been reported that the expression levels of these two control genes are affected by ischemia. Therefore, we have been searching for novel control genes whose expression levels are stable in a mouse model of transient forebrain ischemia. Using the GeneChip Mu6500 array set, we monitored the expression levels of approximately 6000 murine genes in the mouse hippocampus during 24 h of ischemia-reperfusion. To select stable genes, we applied the restricted criterion of a 1.5-fold change in expression level as the threshold. By adding statistical analysis with this criterion, we identified 10 genes as candidates for control genes from the GeneChip data. In this criterion, GAPDH and beta-actin genes were not included in the 10 genes as candidates for control genes. The present findings might be relevant to the use of control genes in quantitation of RNA, particularly in the study of mouse transient forebrain ischemia.

journal_name

J Pharmacol Sci

authors

Nishida Y,Sugahara-Kobayashi M,Takahashi Y,Nagata T,Ishikawa K,Asai S

doi

10.1254/jphs.fp0050881

subject

Has Abstract

pub_date

2006-05-01 00:00:00

pages

52-7

issue

1

eissn

1347-8613

issn

1347-8648

pii

JST.JSTAGE/jphs/FP0050881

journal_volume

101

pub_type

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