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Sample GSM923309 Query DataSets for GSM923309
Status Public on Jul 22, 2013
Title rat hippocampus (CA1 region), LowCort, 18 months old, subject 21
Sample type RNA
 
Source name rat hippocampus (CA1 region)_LowCort
Organism Rattus norvegicus
Characteristics strain: Fisher 344
gender: male
age: 18 months
tissue: hippocampal CA1 brain
treament group: Low-CORT (ADX)
Extracted molecule total RNA
Extraction protocol RNA was extracted from each CA1 tissue block, as described previously (Blalock et al., 2003; Kadish et al., 2009; Rowe et al., 2007) using TRIzol (Invitrogen) followed by ethanol precipitation, and was reconstituted in RNase-free water (Standard Affymetrix)
Label biotin
Label protocol For each sample, 20 ug of biotin-labeled cRNA was generated from 5 ug of total RNA according to manufacturer’s instructions (Standard Affymetrix).
 
Hybridization protocol Standard Affymetrix- 20 ug biotin-labeled cRNA was applied to a rat RGU34A GeneChip (Affymetrix) for hybridization (one chip per animal).
Scan protocol Standard Affymetrix
Data processing The data were analyzed for quality control with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings. Robust Multi-Chip Analysis (RMA) was used to generate signal intensity values using the standard settings in Bioconductor (2.2) operating in the R programming environment (R 2.7.1) with the 'justRMA' command.
 
Submission date Apr 26, 2012
Last update date Jul 24, 2013
Contact name Eric M Blalock
E-mail(s) eric.blalock@uky.edu
Phone 859-323-8033
Organization name University of Kentucky
Department Molecular and Biomedical Pharmacology
Lab Blalock
Street address 800 Rose St.
City Lexington
State/province KY
ZIP/Postal code 40475
Country USA
 
Platform ID GPL85
Series (1)
GSE37618 Glucocorticoid-Dependent Hippocampal Transcriptome in Male Rats: Pathway-Specific Alterations with Aging

Data table header descriptions
ID_REF
VALUE RMA-calculated Signal intensity

Data table
ID_REF VALUE
rc_AI231778_at 7.37641
rc_AA894262_at 6.10759
AF050659UTR#1_at 6.86867
AF030086UTR#1_at 4.5599
J01878_at 8.69407
rc_AA859994_at 7.64225
X62950mRNA_f_at 7.35908
X53231_at 7.38627
M13100cds#1_g_at 8.54715
rc_AA859680_at 7.8505
D83349_at 9.44859
rc_AA891596_at 4.62014
U18419_at 5.27157
M81183Exon_UTR_g_at 4.3029
U48828_g_at 8.68683
rc_AI010292_s_at 12.4792
M23890_s_at 7.09415
rc_AI175776_s_at 4.24143
AF050664UTR#1_at 6.41009
AF057564_at 5.42027

Total number of rows: 8799

Table truncated, full table size 182 Kbytes.




Supplementary file Size Download File type/resource
GSM923309_40-CA1R.CEL.gz 1.9 Mb (ftp)(http) CEL
Raw data provided as supplementary file
Processed data included within Sample table

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