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Sample GSM155232 Query DataSets for GSM155232
Status Public on Feb 23, 2007
Title Human Uninfected Sample N050-CD8+ T cells
Sample type RNA
 
Source name CD8+ T cells derived by negative selection from leukopheresed blood sample
Organism Homo sapiens
Characteristics Male, 27 years old
Treatment protocol Morning leukopheresis, 100ml, followed by standard Ficoll protocol, buffy coat separation and isolation of CD8+ T cells using negative selection kit from StemCell (StemSep Human CD8+ T Cell Enrichment Cocktail).
Extracted molecule total RNA
Extraction protocol Qiagen RNeasy kit
Label biotin
Label protocol 5-6 µg of total RNA was reverse-transcribed using SuperScript II reverse transcriptase (Invitrogen) and second strand synthesis was performed using SuperScript Double-Stranded cDNA Synthesis Kit (cat. # 11917-010, Invitrogen) per manufacturer’s instructions. cDNA was purified using cDNA cleanup columns of the GeneChip Sample Cleanup Module (cat. # 900371, Affymetrix). In vitro transcription of biotin-labeled cRNA was performed with the BioArray HighYield RNA Transcript Labeling kit (cat. # 900182, Enzo Life Sciences) following manufacturer’s instructions. cRNA was purified using IVT cleanup columns of the GeneChip Sample Cleanup Module (cat. # 900371, Affymetrix)
 
Hybridization protocol 20 µg of biotin-labeled cRNA was fragmented following GeneChip Sample Cleanup Module protocol (cat. # 900371, Affymetrix). Fragmented cRNA was hybridized to Hu133A microarrays (Affymetrix) for 16hr in GeneChip Hybridization Oven 640 (Affymetrix) in hybridization cocktail. Washing, staining and scanning were performed on-site using Fluidics Station 400 (Affymetrix) for washes.
Scan protocol GeneArray Scanner (Agilent) was used for scans. Initial image processing was performed using GCOS ver. 1.2 (Affymetrix) with the following settings Alpha1: 0.05, Alpha2: 0.065, Tau: 0.015, Gamma1H: 0.0045, Gamma1L: 0.0045, Gamma2H: 0.006, Gamma2L: 0.006, Target: 500, NF: 1.
Description n/a
Data processing MAS5 algorithm, Alpha1: 0.05, Alpha2: 0.065, Tau: 0.015, Gamma1H: 0.0045, Gamma1L: 0.0045, Gamma2H: 0.006, Gamma2L: 0.006, Target: 500, NF: 1.
 
Submission date Jan 12, 2007
Last update date Sep 01, 2016
Contact name Martin Hyrcza
Organization name University of Toronto
Lab Der/Ostrowski
Street address 1 King's College Circle, Rm 6356
City Toronto
State/province Ontario
ZIP/Postal code M5S1A8
Country Canada
 
Platform ID GPL96
Series (1)
GSE6740 Comparison of transcriptional profiles of CD4+ and CD8+ T cells from HIV-infected pateints and uninfected control group
Relations
Reanalyzed by GSE86363

Data table header descriptions
ID_REF
VALUE Obtained from GCOS ver. 1.2 with MAS5 algorithm

Data table
ID_REF VALUE
1007_s_at 400
1053_at 135
117_at 139
121_at 1263
1255_g_at 48
1294_at 1284
1316_at 139
1320_at 25
1405_i_at 7400
1431_at 85
1438_at 44
1487_at 485
1494_f_at 330
1598_g_at 461
160020_at 379
1729_at 889
177_at 64
1773_at 181
179_at 952
1861_at 265

Total number of rows: 22283

Table truncated, full table size 319 Kbytes.




Supplementary file Size Download File type/resource
GSM155232.CEL.gz 3.1 Mb (ftp)(http) CEL

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