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Sample GSM794126 Query DataSets for GSM794126
Status Public on Feb 16, 2012
Title Sort-purified re-tolerized transgenic CD8 T cells from lymphorepleted, non-tolerogenic mouse replicate #1
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
ID_REF
VALUE log2 transformed, quantile normalized

Data table
ID_REF VALUE
ILMN_1212607 6.132028394
ILMN_1212612 5.632462113
ILMN_1212619 5.482202926
ILMN_1212628 5.717539343
ILMN_1212632 5.715710369
ILMN_1212636 11.24076351
ILMN_1212637 7.932785614
ILMN_1212645 5.916795085
ILMN_1212648 8.656663207
ILMN_1212653 6.94618499
ILMN_1212672 8.871730728
ILMN_1212682 6.081723091
ILMN_1212683 5.51559472
ILMN_1212685 5.826802684
ILMN_1212692 5.776103988
ILMN_1212693 7.920372707
ILMN_1212695 5.749623651
ILMN_1212698 5.700254745
ILMN_1212702 11.48736107
ILMN_1212703 6.985044962

Total number of rows: 25697

Table truncated, full table size 624 Kbytes.




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

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