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Sample GSM896793 Query DataSets for GSM896793
Status Public on Sep 23, 2019
Title DBA/2J strain CD4 splenocyte at T1, biological rep3
Sample type RNA
 
Source name DBA/2J strain_CD4 splenocyte at T1
Organism Mus musculus
Characteristics strain: DBA/2J
gender: female
age: 8 weeks
tissue: CD4+ splenocytes
time point: 4hr after PMA/I stimulation (T1)
Treatment protocol These cells were divided into non-stimulated or phorbol 12-myristate 13-acetate (10 ng ml-1), Boeringer Mannheim) and ionomycin (1uM, Sigma-Aldrich, Missouri)--stimulated (PMA/I) groups and cultured at 37◦C and 5% CO2 for 4 hours.
Growth protocol Splenocytes where extracted and sorted using AutoMACS (Miltenyi Biotech) CD4 Beads (LT34 Miltenyi Biotech) and maintained in MLC supplemented with 10% fetal calf serum (CSL, Parkville, Victoria, Australia) 4 mM L--glutamine, 1 mM sodium pyruvate, 10 mM HEPES, 50 uM beta-mercaptoethanol, penicillin, streptomycin and neomycin.
Extracted molecule total RNA
Extraction protocol Trizol extraction of total RNA was performed followed by clean ups with RNeasy Mini Kits (Qiagen) according to the manufacturer's instructions.
Label biotin
Label protocol Biotinylated cRNA were prepared according to the standard Affymetrix protocol from total RNA. Labelling performed by The Ramaciotti Centre at The University of New South Wales (Sydney, Australia).
 
Hybridization protocol Standard Affymetrix protocols followed. Hybridisation performed by The Ramaciotti Centre at The University of New South Wales (Sydney, Australia).
Scan protocol GeneChips were scanned using the Affymetrix GeneChip Scanner 3000 high resolution scanner. Scanning performed by The Ramaciotti Centre at The University of New South Wales (Sydney, Australia).
Description Gene expression data from DBA/2J strain stimulated (PMA/I,4hr) CD4 splenocytes
HF_D3S
Data processing The data was RMA normalised with Affymetrix Powertools.
 
Submission date Mar 15, 2012
Last update date Sep 23, 2019
Contact name Hugh John French
E-mail(s) hughjohnfrench@gmail.com
Organization name UNSW
Street address UNSW
City Sydney
State/province New South Wales
ZIP/Postal code 2036
Country Australia
 
Platform ID GPL6246
Series (1)
GSE36551 Influence of genetic variation on inducible gene expression in murine CD4+ splenocytes.

Data table header descriptions
ID_REF
VALUE RMA log2 expression.

Data table
ID_REF VALUE
10338001 12.16141
10338002 6.76657
10338003 10.53197
10338004 9.47230
10338005 1.76886
10338006 2.05209
10338007 2.58674
10338008 3.81381
10338009 8.86779
10338010 1.80273
10338011 6.06837
10338012 1.91774
10338013 1.71388
10338014 1.74553
10338015 1.67023
10338016 8.09361
10338017 13.00084
10338018 7.28480
10338019 5.46219
10338020 8.95248

Total number of rows: 35556

Table truncated, full table size 591 Kbytes.




Supplementary file Size Download File type/resource
GSM896793_HF_D3S_MoGene-1_0-st-v1_.CEL.gz 3.7 Mb (ftp)(http) CEL
Processed data included within Sample table

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