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Sample GSM896797 Query DataSets for GSM896797
Status Public on Sep 23, 2019
Title 129X1/SvJ CD4 splenocyte at T1, biological rep1
Sample type RNA
 
Source name 129X1/SvJ strain_CD4 splenocyte at T1
Organism Mus musculus
Characteristics strain: 129X1/SvJ
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 129X1/SvJ strain stimulated (PMA/I,4hr) CD4 splenocytes
HF_S1S
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 12.03695
10338002 6.58892
10338003 10.44663
10338004 9.54306
10338005 1.88286
10338006 2.22791
10338007 2.81466
10338008 3.76398
10338009 8.63784
10338010 1.96602
10338011 5.77776
10338012 2.05083
10338013 1.69672
10338014 1.86309
10338015 1.81841
10338016 7.84074
10338017 13.05131
10338018 6.97179
10338019 5.23863
10338020 8.66356

Total number of rows: 35556

Table truncated, full table size 591 Kbytes.




Supplementary file Size Download File type/resource
GSM896797_HF_S1S_MoGene-1_0-st-v1_.CEL.gz 3.7 Mb (ftp)(http) CEL
Processed data included within Sample table

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