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Status
Public on Nov 26, 2008
Title
CIS_baseline_rep1_cis001
Sample type
RNA
Source name
CD4+ Tcells
Organism
Homo sapiens Characteristics
naïve CD4+ Tcells
Treatment protocol
Untouched naïve CD4+ T cells were isolated by negative selection using Dynabeads® magnetic technology (Invitrogen, Carlsbad, CA). CD4+ T cells purity was assessed by FACS analysis (> 95%, data not shown)
Growth protocol
Peripheral blood mononuclear cells (PBMC) were separated in a ficoll gradient and frozen in liquid nitrogen until ready for CD4+ isolation
Extracted molecule
total RNA
Extraction protocol
RNA was then extracted using RNeasy® Mini kit (Quiagen, Valencia, CA), amplified with MessageAmpTM II aRNA kit 20 (Ambion, Austin, TX)
Label
Biotin
Label protocol
Affymetrix protocol
Hybridization protocol
hybridization onto Affymetrix® Human Genome U133 Plus2.0 arrays (NIH Neuroscience Microarray Consortium, Phoenix, AZ).
Scan protocol
Affymetrix protocol
Description
cis001-HGU133_2
Data processing
Normalized in BRBArrayTools using almostRMA, using default affymterix setting chosen by the program. There was no other scaling or trimming.
Submission date
Nov 25, 2008
Last update date
Aug 28, 2018
Contact name
Sergio Baranzini
E-mail(s)
sebaran@cgl.ucsf.edu Organization name
University of California San Francisco
Department
Neurology
Lab
Baranzini
Street address
513 Parnassus Ave
City
San Francisco
State/province
CA
ZIP/Postal code
94143
Country
USA
Platform ID
GPL570 Series (1)
GSE13732 CIS (multiple sclerosis) (case-control) (time-series)
Relations Reanalyzed by
GSE119087
Data table header descriptions ID_REF VALUE AlmostRMA (implemented in BRBArrayTools)
Data table ID_REF VALUE 1007_s_at
6.441651344
1053_at
5.092270851
117_at
5.32235527
121_at
7.306142807
1255_g_at
2.703006983
1294_at
9.892828941
1316_at
4.868623734
1320_at
3.327962399
1405_i_at
8.978730202
1431_at
4.966874123
1438_at
4.086574078
1487_at
7.098463058
1494_f_at
5.478651524
1552256_a_at
6.160682201
1552257_a_at
7.140017986
1552258_at
5.436667442
1552261_at
4.446456909
1552263_at
8.014206886
1552264_a_at
7.210797787
1552266_at
2.454615831
54675 1212 Kbytes .Supplementary file Size Download File type/resource GSM345077.CEL.gz
4.5 Mb
(ftp) (http) CEL
Processed data included within Sample table
