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Sample GSM590422 Query DataSets for GSM590422
Status Public on Sep 03, 2010
Title Thymic tumor from mouse RJ28
Sample type RNA
 
Source name transformed T cells from a mouse thymic lymphoma
Organism Mus musculus
Characteristics age: 8-10 weeks
disease state: lymphoma
tissue: thymus
cell type: transformed T cells
genotype/variation: IkL/L Notch1f/f 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 with a Notch promoter/exon1 deletion
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 349.4 P
1415671_at 1094.4 P
1415672_at 1345.3 P
1415673_at 286.8 P
1415674_a_at 224.2 P
1415675_at 287.4 P
1415676_a_at 1110.8 P
1415677_at 106.6 P
1415678_at 795.3 P
1415679_at 947.6 P
1415680_at 528.8 P
1415681_at 453.5 P
1415682_at 267.2 P
1415683_at 935.6 P
1415684_at 140.3 P
1415685_at 436.5 P
1415686_at 266.6 P
1415687_a_at 3126.8 P
1415688_at 399.2 P
1415689_s_at 187.9 P

Total number of rows: 45101

Table truncated, full table size 794 Kbytes.




Supplementary file Size Download File type/resource
GSM590422.CEL.gz 5.9 Mb (ftp)(http) CEL
Processed data included within Sample table

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