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Sample GSM923294 Query DataSets for GSM923294
Status Public on Jul 22, 2013
Title rat hippocampus (CA1 region), sham, 18 months old, subject 6
Sample type RNA
 
Source name rat hippocampus (CA1 region)_sham
Organism Rattus norvegicus
Characteristics strain: Fisher 344
gender: male
age: 18 months
tissue: hippocampal CA1 brain
treament group: Sham (intact) control
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 7.05176
rc_AA894262_at 6.75706
AF050659UTR#1_at 6.8015
AF030086UTR#1_at 4.43592
J01878_at 8.58517
rc_AA859994_at 7.27112
X62950mRNA_f_at 7.05585
X53231_at 6.71467
M13100cds#1_g_at 7.96384
rc_AA859680_at 8.0207
D83349_at 9.52493
rc_AA891596_at 4.64553
U18419_at 5.47856
M81183Exon_UTR_g_at 4.0367
U48828_g_at 8.7173
rc_AI010292_s_at 12.0993
M23890_s_at 7.15092
rc_AI175776_s_at 4.12145
AF050664UTR#1_at 6.5205
AF057564_at 5.36862

Total number of rows: 8799

Table truncated, full table size 182 Kbytes.




Supplementary file Size Download File type/resource
GSM923294_13-CA1R.CEL.gz 2.0 Mb (ftp)(http) CEL
Raw data provided as supplementary file
Processed data included within Sample table

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