|
Status |
Public on Jul 01, 2012 |
Title |
Expt 1 - RA only - repeat 3 - mAdbID:68670 |
Sample type |
RNA |
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Source name |
THP-1 RA-only
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Organism |
Homo sapiens |
Characteristics |
tissue: bone marrow cell line: THP-1 cells cell type: human myeloid cells
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Treatment protocol |
Treatment type: compound Agent: at-RA (All-trans-Retinoic acid) Treatment dose: 20 nM Treatment time: 40 hours In-vitro treatment: THP-1 cells were treated with 20 nM RA for 16 hours, followed by re-treatment for 24 hours for a total time of 40 hours. All cells were harvested at the 40 hour time point.
|
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.
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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).
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Scan protocol |
Affymetrix Scanning Protocol: The arrays were scanned at 488 nm at 11-micron resolution using an Affymetrix Gene Chip Scanner.
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Description |
mAdb experiment ID: 68670
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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.
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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 |
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