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Sample GSM386228 Query DataSets for GSM386228
Status Public on Mar 26, 2009
Title PBMCs treated at 3xIC90 for 24 hours,replicate 5
Sample type RNA
 
Source name PBMCs treated at 3xIC90 for 24 hours,replicate 5
Organism Homo sapiens
Characteristics cell type: peripheral blood mononuclear cells
Treatment protocol Cells from donors 1-6 were grown in vehicle, the IC90 (0.2 uM R547) and 3xIC90 (0.6 uM R547) dose of R547 for 2 or 24 hours. Donor 7 was used as the untreated zero hour time-point
Growth protocol Human peripheral blood mononuclear cells (PBMCs) were separated from whole blood of seven healthy donors and cultured in six T75 flasks per donor at 10^7 cells per flask in 10% heat-inactivated FBS in RPMI medium
Extracted molecule total RNA
Extraction protocol Total RNA was extracted from cells using the Qiagen RNeasy Mini Kit
Label biotin
Label protocol RNA was converted into cDNA and cRNA according to the manufacturer’s recommendation and using manufacturer’s kits (Affymetrix, Santa Clara, CA). 15 ug of total RNA was converted to cDNA with the One-cycle cDNA Synthesis Kit with the addition of reagents from the Poly-A RNA Control Kit. cRNA was produced with the IVT Labeling Kit
 
Hybridization protocol Hybridization Mix contained, in addition to cRNA, reagents from the Hybridization Control Kit and Control Oligo B2. Staining and washing steps were performed as suggested by the manufacturer (Affymetrix, Santa Clara, CA).
Scan protocol Each hybridized Affymetrix GeneChip array was scanned with a GeneChip Scanner 3000 7G (Agilent/Affymetrix).
Description n/a
Data processing Affymetrix gene expression microarray data was first background corrected and normalized via the RMA procedure followed by QQ normalization (R/Bioconductor)
 
Submission date Mar 25, 2009
Last update date Aug 28, 2018
Contact name James Rosinski
E-mail(s) jim.rosinski@gmail.com
Organization name Roche
Department In Silico Sciences
Street address 340 Kingsland St
City Nutley
State/province NJ
ZIP/Postal code 07110
Country USA
 
Platform ID GPL570
Series (2)
GSE15389 Peripheral blood mononuclear cells treated with a CDK inhibitor
GSE15396 Peripheral blood mononuclear, DU145, and HCT116 cells treated with a CDK inhibitor
Relations
Reanalyzed by GSE119087

Data table header descriptions
ID_REF
VALUE QQ normalized RMA signal

Data table
ID_REF VALUE
1007_s_at 64.760056
1053_at 83.542458
117_at 117.817421
121_at 318.707397
1255_g_at 6.881883
1294_at 238.020081
1316_at 38.737968
1320_at 14.232702
1405_i_at 3136.569824
1431_at 8.373628
1438_at 20.498772
1487_at 176.551193
1494_f_at 29.959379
1552256_a_at 98.987762
1552257_a_at 219.637726
1552258_at 16.37216
1552261_at 18.985069
1552263_at 172.916397
1552264_a_at 432.754059
1552266_at 9.973709

Total number of rows: 54675

Table truncated, full table size 1108 Kbytes.




Supplementary file Size Download File type/resource
GSM386228.CEL.gz 4.6 Mb (ftp)(http) CEL
Raw data provided as supplementary file
Processed data included within Sample table

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