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Sample GSM226820 Query DataSets for GSM226820
Status Public on Apr 03, 2008
Title Striatum from cocaine treated mutant animal, biological rep. 3
Sample type RNA
 
Source name The striatum including nucleus accumbens from cocaine treated mutant animal
Organism Mus musculus
Characteristics Female, mixed background C57Bl6 and 129, Cre+, Creb1 flox/flox, Crem -/-
Treatment protocol Intra peritoneal injection of 25 mg/kg cocaine, animals were sacrificed one hour after the injection
Growth protocol 5 to 6 week-old littermate female mice were single-caged and handled for 5 days
Extracted molecule total RNA
Extraction protocol Whole brains were removed and placed in RNAlater (Ambion) overnight. Brains were sliced into 150 μm-thick vibratome sections and the striatum including the nucleus accumbens was excised with thin needles. Total RNA was prepared with Rneasy RNA Mini kit (Qiagen) and its quality was assessed on RNA LabChips (Agilent).
Label biotin
Label protocol Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 2 ug total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
 
Hybridization protocol Following fragmentation, 10 ug of cRNA were hybridized for 16 hr at 45C on mouse 430A 2.0 arrays. Chips were washed and stained in the Affymetrix Fluidics Station 400.
Scan protocol GeneChips were scanned using the Hewlett-Packard GeneArray Scanner G2500A.
Description Gene expression data from mutant animals treated with cocaine
Data processing Analysis of array data was performed using the R 2.4.1/Bioconductor 1.9 (Gentleman et al. 2004) . Data was normalized and expression values were computed using the gcrma method.
 
Submission date Sep 04, 2007
Last update date Aug 14, 2011
Contact name Jan Rodriguez Parkitna
E-mail(s) j.rodriguez@dkfz.de
Phone +49 6221 423437
Organization name German Cancer Research Center
Lab Molecular Biology of the Cell I
Street address Im Neuenheimer Feld 581
City Heidelberg
ZIP/Postal code 69120
Country Germany
 
Platform ID GPL8321
Series (1)
GSE8948 Effect of loss of CREB and CREM on cocaine-induced gene expression in the striatum

Data table header descriptions
ID_REF
VALUE gcrma log2 normalized expression index

Data table
ID_REF VALUE
1415670_at 8.359370565
1415671_at 9.527271535
1415672_at 9.636587173
1415673_at 7.073595298
1415674_a_at 7.989144394
1415675_at 6.909347398
1415676_a_at 8.921641222
1415677_at 8.866179043
1415678_at 8.595343223
1415679_at 9.076782185
1415680_at 5.994359615
1415681_at 7.50948892
1415682_at 6.6835233
1415683_at 8.155078307
1415684_at 5.372539108
1415685_at 6.146804695
1415686_at 8.492446988
1415687_a_at 10.7815499
1415688_at 8.782684723
1415689_s_at 5.580898963

Total number of rows: 22690

Table truncated, full table size 521 Kbytes.




Supplementary file Size Download File type/resource
GSM226820.CEL.gz 2.9 Mb (ftp)(http) CEL
Processed data included within Sample table

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