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Sample GSM718413 Query DataSets for GSM718413
Status Public on Jul 01, 2012
Title Expt 2 - Control 0 hr - repeat 1 - mAdbID:71407
Sample type RNA
 
Source name THP-1 Control 0 hr
Organism Homo sapiens
Characteristics tissue: bone marrow
cell line: THP-1 cells
cell type: human myeloid cells
Treatment protocol Treatment type: compound
Agent: ethanol as a vehicle control
Treatment dose: 0.1%
Treatment time: 16 hours
In-vitro treatment: THP-1 cells were treated with 0.1% ethanol at 0 hours. After 16 hours, these cells were harvested.
Extracted molecule total RNA
Extraction protocol RNA was prepared using Trizol extraction.
Label biotin
Label protocol Affymetrix labeling protocol: cDNA was synthesized, labeled, and purified according to vendor's (Affymetrix Inc., Santa Clara, CA) instructions.
 
Hybridization protocol Affymetrix Hybridization Protocol: The arrays were hybridized overnight at 45°C and washed using the fluidics station, then stained with streptavidin-phycoerythrin using the standard antibody amplification protocol (GeneChip Expression Analysis Technical Manual, Affymetrix, Santa Clara, CA).
Scan protocol Affymetrix Scanning Protocol: The arrays were scanned at 488 nm at 11-micron resolution using an Affymetrix Gene Chip Scanner.
Description mAdb experiment ID: 71407
Data processing Data were acquired using Genechip Operating Software (GCOS, Affymetrix) and uploaded onto the NCI website mAdb (http://nciarray.nci.nih.gov/). Data were analyzed by setting the signal floor value to 1 and centering each array to the median signal intensity. The results were expressed as log 2-transformed signal intensities and the log 2 of the median intensity for each array was set to 0.
 
Submission date Apr 30, 2011
Last update date Jul 01, 2012
Contact name A. Catharine Ross
E-mail(s) acr6@psu.edu
Phone 814 865 4721
Fax 814 863 6103
URL http://nutrition.hhdev.psu.edu/faculty/profiles.cfm?facultyid=23
Organization name Penn State
Department Nutritional Sciences
Street address 110 Chandlee Laboratory
City University Park
State/province PA
ZIP/Postal code 16802
Country USA
 
Platform ID GPL570
Series (1)
GSE28995 THP-1 cell study: RA and TNF Treatments; RA time course

Data table header descriptions
ID_REF Affymetrix ID
VALUE see Data Processing Protocol

Data table
ID_REF VALUE
117_at 1.071
121_at 2.835
177_at 0.886
179_at 2.469
320_at 1.623
336_at 0.045
564_at 1.099
632_at 2.585
823_at -0.765
1053_at 4.327
1294_at 3.279
1316_at 0.454
1320_at -2.037
1431_at -0.516
1438_at -0.243
1487_at 4.116
1729_at 2.151
1773_at 1.444
1861_at 2.717
243_g_at 3.778

Total number of rows: 54675

Table truncated, full table size 924 Kbytes.




Supplementary file Size Download File type/resource
GSM718413_71407.CEL.gz 5.0 Mb (ftp)(http) CEL
Processed data included within Sample table

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