|
| Status |
Public on Dec 19, 2012 |
| Title |
LPSX3_veh_3 |
| Sample type |
RNA |
| |
|
| Source name |
LPSX3, vehicle treated
|
| Organism |
Homo sapiens |
| Characteristics |
tissue type: xenograft
cell type: liposarcoma
tumor histology: de-differentiated
host organism: Mus musculus
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Roche's MagNA Pure Compact Nucleic Acid Purification System was used for automated RNA isolation.
|
| Label |
Cy3
|
| Label protocol |
Using Agilent LowInput Quick Amp One Color Labeling Kit (Agilent Technologies) and protocol
|
| |
|
| Hybridization protocol |
Following Agilent SurePrint Human GE 8x60 microarray protocol
|
| Scan protocol |
Arrays were scanned with Agilent DNA Microarray Scanner. Numerical results were extracted with Feature Extraction software version 10.7.1 using 028004_D_F_20110708 grid, GE1_107_Sep09 protocol and GE1_QCMT_Sep09 metric set
|
| Description |
LPSX3 xenograft tumor after vehicle treatment, biological replicate 3
|
| Data processing |
Text files from Agilent Feature Extraction software were processed and normalized by Agi4x44PreProcess package (version 1.14.0) downloaded from Bioconductor. In brief, the signal was adjusted by background correction, and the normalized by quantile method. Probes were fitered out if their signals were abcent (i.e. not above the background) in more than 75% of samples.
|
| |
|
| Submission date |
Dec 18, 2012 |
| Last update date |
Dec 19, 2012 |
| Contact name |
Linh My Tran |
| E-mail(s) |
linhtran@ucla.edu
|
| Organization name |
University of Los Angeles
|
| Department |
Medicine - Pulmonary & Critical Care
|
| Lab |
Dubinett Lab
|
| Street address |
Box 951690, 37-131 CHS
|
| City |
Los Angeles |
| State/province |
California |
| ZIP/Postal code |
90095-1690 |
| Country |
USA |
| |
|
| Platform ID |
GPL13607 |
| Series (1) |
| GSE42975 |
Novel dedifferentiated liposarcoma xenograft models reveal PTEN down regulation as a malignant signature and response to PI3K pathway inhibition |
|
