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Sample GSM228782 Query DataSets for GSM228782
Status Public on Nov 19, 2007
Title HCC_KO_rep2
Sample type RNA
Source name HCC of Trim24 KO
Organism Mus musculus
Characteristics C57BL/6
Age: 20 months
Growth protocol Mice were bred and housed in the Clinical Mouse Institute, ICS (Strasbourg, France) according to guidelines in compliance with the European legislation on care and use of laboratory anaimals.
Extracted molecule total RNA
Extraction protocol Total RNA was isolated using the RNeasy Kit from QIAGEN.
Label biotin
Label protocol Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 5 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 GeneChip Mouse 430 2.0 Genome Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 400.
Scan protocol GeneChips were scanned using the Affymetrix Scanner GCS3000
Description Gene expression data from liver tumors of Trim24 KO mice
Data processing The data were analyzed with Affymetrix GCOS software version 1.1 using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 100.
Submission date Sep 11, 2007
Last update date Aug 28, 2018
Contact name RĂ©gine Losson
Organization name IGBMC
Street address 1 rue Laurent Fries
ZIP/Postal code 67404
Country France
Platform ID GPL1261
Series (1)
GSE9012 Expression data from spontaneous liver tumors of Trim24/TIF1a-null mice.
Reanalyzed by GSE119085

Data table header descriptions
VALUE Signal
ABS_CALL indicating whether the transcript was present (P), absent (A), or marginal (M)

Data table
AFFX-BioB-5_at 86.2387 P 0.000856509
AFFX-BioB-M_at 174.71 P 0.000258358
AFFX-BioB-3_at 77.8671 P 0.000258067
AFFX-BioC-5_at 208.648 P 7.00668e-05
AFFX-BioC-3_at 202.332 P 4.42873e-05
AFFX-BioDn-5_at 255.946 P 6.02111e-05
AFFX-BioDn-3_at 928.055 P 5.16732e-05
AFFX-CreX-5_at 2589.67 P 5.16732e-05
AFFX-CreX-3_at 3844.93 P 4.42873e-05
AFFX-DapX-5_at 6.41317 A 0.300606
AFFX-DapX-M_at 10.8011 A 0.205732
AFFX-DapX-3_at 1.13338 A 0.772364
AFFX-LysX-5_at 3.65303 A 0.239063
AFFX-LysX-M_at 1.70862 A 0.737173
AFFX-LysX-3_at 0.89318 A 0.470238
AFFX-PheX-5_at 0.33886 A 0.932339
AFFX-PheX-M_at 1.61223 A 0.699409
AFFX-PheX-3_at 4.12832 A 0.631562
AFFX-ThrX-5_at 1.4005 A 0.699409
AFFX-ThrX-M_at 3.7156 A 0.368427

Total number of rows: 45101

Table truncated, full table size 1384 Kbytes.

Supplementary file Size Download File type/resource
GSM228782.CEL.gz 6.1 Mb (ftp)(http) CEL
GSM228782.CHP.gz 11.1 Mb (ftp)(http) CHP
GSM228782.EXP.gz 511 b (ftp)(http) EXP
Raw data provided as supplementary file
Processed data included within Sample table
Processed data provided as supplementary file

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