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Sample GSM386422 Query DataSets for GSM386422
Status Public on Mar 26, 2009
Title HCT116 cells treated at the IC90 for 24 hours, replicate a
Sample type RNA
 
Source name HCT116 cells treated at the IC90 for 24 hours, replicate a
Organism Homo sapiens
Characteristics cell line: HCT116
Treatment protocol HCT116 cells were grown in vehicle (DMSO), IC50, IC90 or the 3xIC90 dose of R547 for 0,1, 2, 4, 6, and 24 hours
Growth protocol Cell lines were maintained in the recommended medium and supplemented with 10% heat-inactivated fetal bovine serum (Life Technologies, Gaithersburg, MD) and 2 mmol/L L-glutamine (Life Technologies)
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)
GSE15395 HCT116 tumor 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 1251.640137
1053_at 279.868134
117_at 66.363068
121_at 390.101135
1255_g_at 14.641811
1294_at 35.679897
1316_at 42.587151
1320_at 41.105656
1405_i_at 13.457305
1431_at 16.908821
1438_at 71.715218
1487_at 169.473099
1494_f_at 40.499023
1552256_a_at 347.691833
1552257_a_at 584.455139
1552258_at 37.726639
1552261_at 38.39901
1552263_at 52.274033
1552264_a_at 273.060089
1552266_at 35.846088

Total number of rows: 54675

Table truncated, full table size 1120 Kbytes.




Supplementary file Size Download File type/resource
GSM386422.CEL.gz 4.9 Mb (ftp)(http) CEL
Processed data included within Sample table

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