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Sample GSM798470 Query DataSets for GSM798470
Status Public on Apr 29, 2012
Title Trim28CKO TCR-stimulated CD4 positve T cell rep2
Sample type RNA
Source name Trim28 conditional KO mice naïve CD4 positive cell, TCR-stimulated, replicate 2
Organism Mus musculus
Characteristics strain: C57BL/6
gender: Female
age: 6 weeks old
cell type: CD4 positive T cell
treatment: TCR-stimulated
genotype: Trim28CKO
Treatment protocol Stimulations were done with plate-coated anti-CD3(1mg/ml) and anti-CD28 (1mg/ml)for 13 hours.
Growth protocol Mice were maintained under specific pathogen-free conditions according to institutional guidelines under approved protocols in Kyoto University.
Extracted molecule total RNA
Extraction protocol Total RNAs were extracted with Qiagen RNeasy mini kit with on-column DNaseI treatment. RNA quality was assessed using Agilent 2100 Bioanalyzer according to manufacturer's instructions.
Label Cy3
Label protocol Cy3 labeled cRNA was produced using Agilent Low Input QuickAmp Labeling Kit according to manufacturer's protocol.
Hybridization protocol For each sample, 1.65ug of Cy3 labeled cRNAs were fragmented and hybridized for 17 hours in a rotating hybridization oven.
Scan protocol Slide were washed and then scanned with an Agilent G2505B scanner
Data processing Data were obtained and processed with the Agilent Feature Extraction Software(v9.5). The resulting data were imported into Expressionist and quantile normalized intensities were exported.
Submission date Sep 19, 2011
Last update date Apr 29, 2012
Contact name Tasuku Honjo
Organization name Kyoto University
Department Department of Immunology and Genomic Medicine
Street address Yoshida Konoe-cho, Sakyo-ku
City Kyoto
ZIP/Postal code 606-8501
Country Japan
Platform ID GPL7202
Series (1)
GSE32224 Comparison of gene expression in Wild type and T cell-specific conditional Trim28 KO in TCR stimulated and un-stimulated naive CD4 positive and T regulatory cells

Data table header descriptions
VALUE Quantile normalized intensities of samples exported from Expressionist

Data table
A_51_P100021 2097.325
A_51_P100034 2195.114
A_51_P100052 4.901898
A_51_P100063 5.40114
A_51_P100084 7.18512
A_51_P100099 91.50195
A_51_P100155 1531.472
A_51_P100174 139.1103
A_51_P100181 70.84279
A_51_P100218 1.275625
A_51_P100227 1011.319
A_51_P100238 1.328073
A_51_P100246 414.8426
A_51_P100289 1401.805
A_51_P100298 1.509101
A_51_P100309 1.668003
A_51_P100327 154.1546
A_51_P100347 30.93944
A_51_P100379 9.207346
A_51_P100428 1.497452

Total number of rows: 41174

Table truncated, full table size 878 Kbytes.

Supplementary file Size Download File type/resource
GSM798470_KO_stimulated_2.txt.gz 7.8 Mb (ftp)(http) TXT
Processed data included within Sample table

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