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Sample GSM172397 Query DataSets for GSM172397
Status Public on Jul 30, 2007
Title C57BL/6ByJ strain, brain hemisphere, biological rep3
Sample type RNA
 
Source name Brain hemisphere of adult male mouse, cerebellum not included
Organism Mus musculus
Characteristics Inbred strain: C57BL/6ByJ; Gender: male; Age: 11-week-old (+/- 1 week)
Treatment protocol Animals were killed by cervical dislocation, brains were quickly removed, hemisectioned, and alternate left or right hemispheres were collected in RNA-Later. After processing each hemisphere separately, 10 hemispheres were pooled for one high-density oligonucleotide microarray
Extracted molecule total RNA
Extraction protocol Trizol extraction of total RNA was performed according to the manufacturer's instructions.
Label biotin
Label protocol Fragmented cRNA probes were prepared from 7 µg of total RNA according to the protocol of Affymetrix using Superscript Choice System (Invitrogen) and a RNA Transcript Labeling Kit (Enzo, Farmingdale, NY).
 
Hybridization protocol Following fragmentation, 10 ug of cRNA were hybridized for 16 hr at 45oC on GeneChip Mouse Genome 430 2.0. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
Scan protocol GeneChips were scanned using the GeneChipR Scanner
Description Gene expression data from brain hemispheres of experimentally naive male mice
Data processing We used .CEL files produced by GCOS for probe (cell) level Robust Multi-Array Average (RMA)-based normalization of data as implemented in GeneTraffic ver. 3.0
 
Submission date Feb 28, 2007
Last update date Aug 28, 2018
Contact name Csaba Vadasz
E-mail(s) vadasz@nki.rfmh.org
Organization name New York University NKI
Department Center for Neurobehavior Genetics
Street address 140 Old Orangeburg Road
City Orangeburg
State/province NY
ZIP/Postal code 10962
Country USA
 
Platform ID GPL1261
Series (1)
GSE7155 Expression data from adult laboratory mouse brain hemispheres
Relations
Reanalyzed by GSE119085

Data table header descriptions
ID_REF ProbeSetID
VALUE RMA-normalized Signal intensity

Data table
ID_REF VALUE
AFFX-TrpnX-M_at 4.971010518
AFFX-TrpnX-5_at 5.51170664
AFFX-TrpnX-3_at 4.661049049
AFFX-TransRecMur/X57349_M_at 6.81112004
AFFX-TransRecMur/X57349_5_at 6.99107906
AFFX-TransRecMur/X57349_3_at 17.45398964
AFFX-ThrX-M_at 47.19086697
AFFX-ThrX-5_at 48.44804752
AFFX-ThrX-3_at 129.4525734
AFFX-r2-P1-cre-5_at 4022.127167
AFFX-r2-P1-cre-3_at 5180.85191
AFFX-r2-Ec-bioD-5_at 1153.824689
AFFX-r2-Ec-bioD-3_at 909.8929904
AFFX-r2-Ec-bioC-5_at 367.4531491
AFFX-r2-Ec-bioC-3_at 363.8246496
AFFX-r2-Ec-bioB-M_at 84.3109588
AFFX-r2-Ec-bioB-5_at 110.9809079
AFFX-r2-Ec-bioB-3_at 102.3002077
AFFX-r2-Bs-thr-M_s_at 111.9930296
AFFX-r2-Bs-thr-5_s_at 79.76989816

Total number of rows: 45101

Table truncated, full table size 1025 Kbytes.




Supplementary file Size Download File type/resource
GSM172397.CEL.gz 3.0 Mb (ftp)(http) CEL

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