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Sample GSM590418 Query DataSets for GSM590418
Status Public on Sep 03, 2010
Title Thymic tumor from mouse RJ11
Sample type RNA
 
Source name transformed T cells from a mouse thymic lymphoma
Organism Mus musculus
Characteristics age: 18-20 weeks
disease state: lymphoma
tissue: thymus
cell type: transformed T cells
genotype/variation: IkL/L Notch1+/+ CD4-Cre+
Treatment protocol Thymic lymphomas were dissected from euthanized sick mice and tumor cells collected after tissue disruption between frosted ends of microscope slides
Extracted molecule total RNA
Extraction protocol RNAs were extracted with the RNAeasy kit, following the manufacturer's instructions (including DNAse I treatment)
Label biotin
Label protocol Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 1 ug total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
 
Hybridization protocol Following fragmentation, 12 ug of cRNA were hybridized for 16 hr at 45C on GeneChip 430 2.0 Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
Scan protocol Arrays were scanned with a GeneChip® Scanner 3000 7G System
Description gene expression data from a thymic tumor from an Ikaros deficient thymic lymphoma
Data processing The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. Target intensity was set at 100.
 
Submission date Sep 03, 2010
Last update date Dec 05, 2013
Contact name Susan Chan
E-mail(s) [email protected]
Phone 33 3 88 65 34 72
Organization name IGBMC
Street address 1, rue Laurent Fries
City Illkirch
ZIP/Postal code 67404
Country France
 
Platform ID GPL1261
Series (1)
GSE23972 Ikaros deficient mouse thymic lymphomas

Data table header descriptions
ID_REF
VALUE MAS5.0 signal intensity
DETECTION P-VALUE

Data table
ID_REF VALUE DETECTION P-VALUE
1415670_at 345.5 P
1415671_at 438 P
1415672_at 1058.6 P
1415673_at 387.1 P
1415674_a_at 305.9 P
1415675_at 230.4 P
1415676_a_at 1101.8 P
1415677_at 84 P
1415678_at 470.2 P
1415679_at 941.6 P
1415680_at 669.7 P
1415681_at 427.1 P
1415682_at 300.7 P
1415683_at 858.4 P
1415684_at 134.5 P
1415685_at 409 P
1415686_at 248.5 P
1415687_a_at 1609.6 P
1415688_at 671.7 P
1415689_s_at 181.6 P

Total number of rows: 45101

Table truncated, full table size 795 Kbytes.




Supplementary file Size Download File type/resource
GSM590418.CEL.gz 5.9 Mb (ftp)(http) CEL
Processed data included within Sample table

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