|
| Status |
Public on Mar 30, 2010 |
| Title |
erStress_60grandparents_GM12005_4_ug_ml_tunicamycin_8_hours_rep1 |
| Sample type |
RNA |
| |
|
| Source name |
Lymphoblastoid cell lines derived from GM12005
|
| Organism |
Homo sapiens |
| Characteristics |
cell line: lymphoblastoid cell line
coriell cell line repository identifier: GM12005
agent: tunicamycin
dose: 4 ug/ml
time: 8 hours
|
| Biomaterial provider |
Coriell: GM12005
http://ccr.coriell.org/Sections/Search/Search.aspx?PgId=165&q=GM12005
|
| Treatment protocol |
4 ug/ml tunicamycin 8 hours
|
| Growth protocol |
The cells were grown at a density of 1 million cells/ ml in RPMI 1640 with 15% FBS, 1% penicillin-streptomycin, 2mM L-glutamine at 37°C in a humidified 5% CO2 chamber.
|
| Extracted molecule |
total RNA |
| Extraction protocol |
RNA was extracted using the Rneasy Mini-Kit (Qiagen) as per the manufacturer's instructions
|
| Label |
biotin
|
| Label protocol |
Biotinylated cRNA were prepared according to the Ambion MessageAmp Premier RNA Amplification Kit protocol from 500 ng total RNA (MessageAmp Premier RNA Amplification Kit Instruction Manual, 2008, Ambion).
|
| |
|
| Hybridization protocol |
Following fragmentation, 15 ug of cRNA were hybridized for 16-18 hr at 45C on Affymetrix Human Genome U133 Plus 2.0 Arrays. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
|
| Scan protocol |
GeneChips were scanned using the Affymetrix GeneChip Scanner 3000 7G.
|
| Description |
Gene expression data under ER stress from lymphoblastoid cells of individual GM12005 treated with 4 ug/ml tunicamycin 8 hours.
|
| Data processing |
The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix print default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 500.
|
| |
|
| Submission date |
Dec 16, 2009 |
| Last update date |
Mar 30, 2010 |
| Contact name |
Renuka Nayak |
| Organization name |
HHMI, University of Pennsylvania
|
| Street address |
3516 Civic Center Blvd
|
| City |
Philadelphia |
| State/province |
PA |
| ZIP/Postal code |
19104 |
| Country |
USA |
| |
|
| Platform ID |
GPL570 |
| Series (2) |
| GSE19519 |
Expression levels in immortalized B cells from unrelated individuals and twins undergoing ER stress |
| GSE36911 |
Gene expression levels in immortalized B cells from 131 unrelated CEPH-Utah grandparents treated under ER stress. |
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