GEO Logo
   NCBI > GEO > Accession DisplayHelp Not logged in | LoginHelp
GEO help: Mouse over screen elements for information.
Series GSE2162 Query DataSets for GSE2162
Status Public on Nov 14, 2005
Title Two circadian oscillatory mechanisms in the mouse liver
Organism Mus musculus
Experiment type Expression profiling by array
Summary Genome-wide expression analysis of two circadian oscillatory mechanisms in the mouse liver

To identify the genes of which the circadian expression is regulated by endogenous glucocorticoids, we performed DNA microarray analysis using hepatic RNA from adrenalectomized (ADX) and sham-operated mice. Mice were housed in a 12:12 h light-dark cycle (LD12:12; lights on at zeitgeber time (ZT) 0) for at least two weeks before the day of the experiment. Liver samples were dissected, quickly frozen, and stored in liquid nitrogen. Total RNA was purified from pools of 3 animal tissues collected at each time-point using ISOGEN (Nippon Gene Co., Ltd., Japan). Hybridization to Affymetrix GeneChip (MG-U74Av2) arrays proceeded as described (Oishi K et al., J Biol Chem, 278, 41519-41527, 2003). The average difference (AD) value for each gene was provided by GeneChip software. To identify putative glucocorticoid-regulated circadian genes, we compared AD values between two time points (ZT2 and ZT14) in sham operated and in ADX mice. We applied three criteria to the selection of putative glucocorticoid-regulated circadian genes: (i) the AD value is marked as “present” by the GeneChip software in at least one of two time points, (ii) the AD value exhibits a 2-fold or greater change in sham-operated mice and (iii) the fold change is below 2-fold in ADX mice. We identified 169 genes that fluctuated between day and night in the livers of sham-operated mice. Among these, 100 lost circadian rhythmicity in ADX mice. On the other hand, the circadian expression of clock or clock-related genes such as mPer2 and DBP remained almost totally intact in the liver of ADX mice. The present study showed that the circadian expression of one type of liver genes in the mouse is governed by core components of the circadian clock such as CLOCK and BMAL1, and the other depends on endogenous glucocorticoids.
Keywords: parallel sample
Contributor(s) Oishi K, Shirai H, Amagai N, Kadota K, Ohkura N, Ishida N
Citation(s) 16303750
Submission date Jan 15, 2005
Last update date Feb 18, 2018
Contact name Norio Ishida
Phone +81-29-861-6053
Organization name National Institute of Advanced Industrial Science and Technology
Street address
City Tsukuba
ZIP/Postal code 135-0064
Country Japan
Platforms (1)
GPL81 [MG_U74Av2] Affymetrix Murine Genome U74A Version 2 Array
Samples (4)
GSM38982 sham-operated mouse at zeitgeber time (ZT) 2
GSM38983 sham-operated mouse at zeitgeber time (ZT) 14
GSM38984 ADX mice at zeitgeber time (ZT) 2
BioProject PRJNA91429

Download family Format
SOFT formatted family file(s) SOFTHelp
MINiML formatted family file(s) MINiMLHelp
Series Matrix File(s) TXTHelp

Supplementary file Size Download File type/resource
GSE2162_RAW.tar 12.4 Mb (http)(custom) TAR (of CEL, EXP, RPT, TXT)

| NLM | NIH | GEO Help | Disclaimer | Accessibility |
NCBI Home NCBI Search NCBI SiteMap