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Sample GSM228785 Query DataSets for GSM228785
Status Public on Nov 19, 2007
Title HCC_KO_rep5
Sample type RNA
 
Source name HCC of Trim24 KO
Organism Mus musculus
Characteristics C57BL/6
Male
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
E-mail(s) losson@igbmc.u-strasbg.fr
Organization name IGBMC
Street address 1 rue Laurent Fries
City ILLKIRCH CEDEX
ZIP/Postal code 67404
Country France
 
Platform ID GPL1261
Series (1)
GSE9012 Expression data from spontaneous liver tumors of Trim24/TIF1a-null mice.
Relations
Reanalyzed by GSE119085

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

Data table
ID_REF VALUE ABS_CALL DETECTION P-VALUE
AFFX-BioB-5_at 86.8758 P 0.00110197
AFFX-BioB-M_at 168.712 P 0.00141043
AFFX-BioB-3_at 56.4341 P 0.0044838
AFFX-BioC-5_at 239.35 P 7.00668e-05
AFFX-BioC-3_at 227.987 P 0.000258067
AFFX-BioDn-5_at 315.981 P 0.000224668
AFFX-BioDn-3_at 1077.19 P 5.16732e-05
AFFX-CreX-5_at 3648.43 P 5.16732e-05
AFFX-CreX-3_at 4752.75 P 4.42873e-05
AFFX-DapX-5_at 0.703666 A 0.645547
AFFX-DapX-M_at 14.7647 A 0.300591
AFFX-DapX-3_at 1.07198 A 0.969024
AFFX-LysX-5_at 7.95947 A 0.0894591
AFFX-LysX-M_at 6.52431 A 0.645547
AFFX-LysX-3_at 3.65293 A 0.262809
AFFX-PheX-5_at 1.21177 A 0.922016
AFFX-PheX-M_at 1.38241 A 0.916408
AFFX-PheX-3_at 4.97563 A 0.794268
AFFX-ThrX-5_at 1.61764 A 0.81489
AFFX-ThrX-M_at 2.04913 A 0.659339

Total number of rows: 45101

Table truncated, full table size 1369 Kbytes.




Supplementary file Size Download File type/resource
GSM228785.CEL.gz 5.9 Mb (ftp)(http) CEL
GSM228785.CHP.gz 10.9 Mb (ftp)(http) CHP
GSM228785.EXP.gz 361 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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