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Sample GSM923289 Query DataSets for GSM923289
Status Public on Jul 22, 2013
Title rat hippocampus (CA1 region), sham, 18 months old, subject 1
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
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
VALUE RMA-calculated Signal intensity

Data table
rc_AI231778_at 6.61746
rc_AA894262_at 6.1755
AF050659UTR#1_at 5.90626
AF030086UTR#1_at 4.40527
J01878_at 8.68876
rc_AA859994_at 7.65231
X62950mRNA_f_at 6.83174
X53231_at 7.46113
M13100cds#1_g_at 7.34384
rc_AA859680_at 7.96797
D83349_at 8.80925
rc_AA891596_at 4.43263
U18419_at 5.40453
M81183Exon_UTR_g_at 3.84233
U48828_g_at 8.97465
rc_AI010292_s_at 12.4001
M23890_s_at 7.30355
rc_AI175776_s_at 4.39184
AF050664UTR#1_at 6.40707
AF057564_at 5.42106

Total number of rows: 8799

Table truncated, full table size 182 Kbytes.

Supplementary file Size Download File type/resource
GSM923289_2-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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