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Status |
Public on Sep 22, 2009 |
Title |
m1_Tnaive |
Sample type |
RNA |
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|
Source name |
Sorted CD4+ T cells, naïve
|
Organism |
Mus musculus |
Characteristics |
Strain: C57BL/6 Gender: male Age: 15 weeks Tissue: pooled spleen and lymph nodes
|
Treatment protocol |
Sorted lymphocytes.
|
Growth protocol |
Primary cells.
|
Extracted molecule |
total RNA |
Extraction protocol |
Total RNA was purified with the RNEasy mini kit (Qiagen) with on-column DNAse treatment according to manufacturer's instructions. Total RNA quality was assessed using a Pico Chip on an Agilent 2100 Bioanalyzer (Agilent Technologies, Palo Alto).
|
Label |
Cy3
|
Label protocol |
RNA was amplified and labeled with Cy3-CTP using the Agilent low RNA input fluorescent linear amplification kits following the manufacturer’s protocol (Agilent). Labeled cRNA was assessed using the Nandrop ND-100 (Nanodrop Technologies, Inc., Wilmington DE).
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|
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Hybridization protocol |
Equal amounts of Cy3-labeled target were hybridized to Agilent whole mouse genome 4x44K Ink-jet arrays (Agilent). Hybridizations were performed for 14 hrs, according to the manufacturer’s protocol (Agilent).
|
Scan protocol |
Arrays were scanned using the Agilent microarray scanner (Agilent) and raw signal intensities were extracted with Feature Extraction v9.1 software (Agilent).
|
Description |
Amplified total RNA was hybridized to Agilent 4X44k arrays. Sample 6
|
Data processing |
This dataset was normalized using the quantile normalization method that is proposed by Bolstad et al (2003). This procedure was carried out using the Bioconductor package limma (http://www.bioconductor.org). No background subtraction was performed.
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|
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Submission date |
Nov 06, 2008 |
Last update date |
Sep 22, 2009 |
Contact name |
Mark Klinger |
E-mail(s) |
mark.klinger@ucsf.edu
|
Phone |
415-502-5432
|
Organization name |
University of California, San Francisco
|
Department |
Microbiology and Immunology
|
Lab |
Nigel Killeen
|
Street address |
513 Parnassus Avenue, Box0414
|
City |
San Francisco |
State/province |
CA |
ZIP/Postal code |
94122 |
Country |
USA |
|
|
Platform ID |
GPL7202 |
Series (1) |
GSE13502 |
Gene expression analysis of Ox40-cre/ROSA-YFP CD4+ T cell subsets |
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