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Sample GSM1416923 Query DataSets for GSM1416923
Status Public on Jan 20, 2015
Title 5211_CD4_Naive_48 [Affymetrix]
Sample type RNA
 
Source name Human Naive CD4 T Cell
Organism Homo sapiens
Characteristics activation: anti-CD3/CD28 beads, 48 hours
Treatment protocol Purified naïve and memory CD4 T cells were cultured in RPMI supplemented with 10% FBS, 100 U/ml penicillin and 100mg/ml streptomycin at 37C and 5% CO2 with anti-CD3/CD28 activator beads (Invitrogen) for 0 or 48 hours.
Growth protocol Naïve and memory CD4 cells were negatively selected using magnetic beads (Stem Cell Technologies).
Extracted molecule total RNA
Extraction protocol Total RNA was prepared from cell pellets using an All Prep kit (QIAGEN).
Label biotin
Label protocol Biotinylated cDNA were prepared using the Ambion WT Expression Kit (Ambion Life Technologies) following manufacturer's instructions. cDNA was fragmented and labeled with GeneChip WT Terminial Labeling kit (Affymetrix).
 
Hybridization protocol Following labelling, 2.5 ug of cDNA were hybridized for 17 h at 48C on HuGene 1.1ST peg arraya (Affymetrix)
Scan protocol Washing and staining and scanning done per the Gene Titan MC protocol for HuGene 1.1ST peg arrays.
Description Gene expression data for anti-CD3/CD28 activated human naive CD4 T cells
Data processing The data were analyzed with Partek Genomics Suite (Partek Incorporated) and was Robust Multi-array Average (RMA) normalized
 
Submission date Jun 19, 2014
Last update date Jan 23, 2015
Contact name Daniel Salomon
E-mail(s) dsalomon@scripps.edu
Organization name The Scripps Research Institute
Department Molecular & Experimental Medicine
Lab Salomon
Street address 10550 N Torrey Pines Rd, MEM-241
City La Jolla
State/province CA
ZIP/Postal code 92037
Country USA
 
Platform ID GPL11532
Series (2)
GSE58684 Defining CD4 T Cell Memory by the Epigenetic Landscape of CpG DNA Methylation [Affymetrix]
GSE59860 Defining CD4 T Cell Memory by the Epigenetic Landscape of CpG DNA Methylation

Data table header descriptions
ID_REF
VALUE RMA

Data table
ID_REF VALUE
7892501 6.99343
7892502 5.20989
7892503 4.48851
7892504 6.42825
7892505 2.63996
7892506 7.11635
7892507 5.84183
7892508 7.60592
7892509 11.9694
7892510 6.21077
7892511 4.74736
7892512 6.04895
7892513 4.93464
7892514 10.8626
7892515 7.76168
7892516 5.06927
7892517 7.05229
7892518 3.80186
7892519 6.4106
7892520 8.56044

Total number of rows: 33297

Table truncated, full table size 516 Kbytes.




Supplementary file Size Download File type/resource
GSM1416923_091311_KK_HuGene1_1ST_5211_CD4_Nave_48hr_H05.CEL.gz 4.5 Mb (ftp)(http) CEL
Processed data included within Sample table

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