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Sample GSM794127 Query DataSets for GSM794127
Status Public on Feb 16, 2012
Title Sort-purified re-tolerized transgenic CD8 T cells from lymphorepleted, non-tolerogenic mouse replicate #2
Sample type RNA
Source name mouse splenocytes
Organism Mus musculus
Characteristics cd8 t cells: TCR GAGxAlb:GAG transgenic CD8
cd8 t cell subsets: Tolerant T cells post homeostatic proliferation in lymphoreplete, non-tolerogenic mouse, more than 90 days post transfer
Extracted molecule total RNA
Extraction protocol After FACS-sorting , T-cells were washed twice with cold PBS and cell pellets were frozen and stored at -80C until all samples were collected. RNA was isolated using Qiagen RNeasy Plus Mini Kit per the manufacturer’s instructions and the yield was determined on a NanoDrop ND-1000 spectrophotometer (Thermo Scientific, Wilmington, DE). Samples that had an appropriate yield (typically 100ng total RNA) were subsequently analyzed for RNA integrity using an Agilent 2100 Bioanalyzer (Agilent Technologies, Inc., Santa Clara, CA).
Label biotin
Label protocol Illumina TotalPrep RNA Amplification Kit (Applied Biosystems)
Hybridization protocol Standard Illumina hybridization protocol
Scan protocol BeadChips were scanned on an Illumina BeadArray Reader
Description re-tolerized T cells are defined in this study as previsouly rescued T cells which become dysfunctional again in lymphorepleted wild-type B6 mice.
Data processing The data was quantile normalized using the Bioconductor package, “lumi,” and transformed to log2 scale
Submission date Sep 09, 2011
Last update date Feb 16, 2012
Contact name Andrea Schietinger
Organization name University of Washington
Department Immunology
Lab Dr. Philip D Greenberg
Street address 1959 NE Pacific Street
City Seattle
State/province WA
ZIP/Postal code 98195-7650
Country USA
Platform ID GPL6885
Series (1)
GSE32025 Gene expression profile of murine tolerant, self-antigen specific CD8 T cells

Data table header descriptions
VALUE log2 transformed, quantile normalized

Data table
ILMN_1212607 5.918386234
ILMN_1212612 5.626439137
ILMN_1212619 5.685379552
ILMN_1212628 5.702103407
ILMN_1212632 5.749355484
ILMN_1212636 10.66886726
ILMN_1212637 7.864103585
ILMN_1212645 6.154480597
ILMN_1212648 8.7680299
ILMN_1212653 6.648944728
ILMN_1212672 8.824704218
ILMN_1212682 5.958610712
ILMN_1212683 5.619608644
ILMN_1212685 5.635367454
ILMN_1212692 5.816599707
ILMN_1212693 7.660114775
ILMN_1212695 5.853080786
ILMN_1212698 5.64347142
ILMN_1212702 12.40976571
ILMN_1212703 6.554077167

Total number of rows: 25697

Table truncated, full table size 625 Kbytes.

Supplementary data files not provided
Raw data are available on Series record
Processed data included within Sample table

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