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Status |
Public on Jul 19, 2010 |
Title |
hmp223 cell line [mouse mRNA] |
Sample type |
RNA |
|
|
Source name |
mouse tumor model
|
Organism |
Mus musculus |
Characteristics |
disease state: mouse ependymoma model tissue: Spinal genotype: Arf null age: embryonic
|
Treatment protocol |
tumor exicision or cell line suspension extraction
|
Growth protocol |
mouse tumors and cell lines
|
Extracted molecule |
total RNA |
Extraction protocol |
standard Trizol extraction of total RNA was performed according to the manufacturer's instructions.
|
Label |
biotin
|
Label protocol |
Biotinylated cRNA were prepared according to the standard Affymetrix One-Cycle protocol from 1 ug of total RNA (Expression Analysis Technical Manual, 2005-2006, Affymetrix).
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|
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Hybridization protocol |
Following fragmentation, 15 ug of cRNA were hybridized for 16 hr at 45C on GeneChip Mouse Genome Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
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Scan protocol |
GeneChips were scanned using the GeneChip Scanner 3000 7G.
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Description |
Gene expression data from mouse model tumor models
|
Data processing |
The data were analyzed with GCOS v1.4 software (Affymetrix, Santa Clara, CA). Signals were normalized for each array by scaling to a 2% trimmed mean of 500.
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Submission date |
May 05, 2010 |
Last update date |
Oct 08, 2010 |
Contact name |
Richard James Gilbertson |
E-mail(s) |
richard.gilbertson@stjude.org
|
Organization name |
St Jude Children's Research Hospital
|
Department |
Developmental Neurobiology
|
Street address |
262 Danny Thomas Place
|
City |
Memphis |
State/province |
TN |
ZIP/Postal code |
38105 |
Country |
USA |
|
|
Platform ID |
GPL1261 |
Series (1) |
GSE21687 |
Comparative genomics matches mutations and cells to generate faithful ependymoma models |
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