|
| Status |
Public on Nov 21, 2010 |
| Title |
CGH: FSCS sorted CD105+ cells from case62 |
| Sample type |
genomic |
| |
|
| Channel 1 |
| Source name |
sorted cell from case62
|
| Organism |
Homo sapiens |
| Characteristics |
cell type: CD105+ cell from GBM tumor
age: 61 y
gender: female
|
| Growth protocol |
GBM specimen were dissociated into single cell and then labelled with fluorochrome-labelled antibodies fro FACS sorting
|
| Extracted molecule |
genomic DNA |
| Extraction protocol |
Genomic DNA were extracted from freshly sorted cell population by using the Picopure DNA extraction Kit, followed by phenol extraction.
|
| Label |
Cy5
|
| Label protocol |
standard Agilent CGH directly labellling protocol
|
| |
|
| Channel 2 |
| Source name |
normal human genomic DNA-Roche
|
| Organism |
Homo sapiens |
| Characteristics |
sample type: normal human genomic DNA-Roche
|
| Growth protocol |
GBM specimen were dissociated into single cell and then labelled with fluorochrome-labelled antibodies fro FACS sorting
|
| Extracted molecule |
genomic DNA |
| Extraction protocol |
Genomic DNA were extracted from freshly sorted cell population by using the Picopure DNA extraction Kit, followed by phenol extraction.
|
| Label |
Cy3
|
| Label protocol |
standard Agilent CGH directly labellling protocol
|
| |
|
| |
| Hybridization protocol |
standard Agilent CGH protocol
|
| Scan protocol |
standard Agilent protocol.
|
| Data processing |
standard Agilent protocol CGH_v4_10_27_aug08, Log2 ratios were normalized by Lowess against probe intensity and mean %GC of the genomic region mapped to by the probe. Segmentation of normalized log2 ratios was by Circular Binary Segmentation (CBS, R package DNAcopy)
|
| |
|
| Submission date |
Sep 30, 2010 |
| Last update date |
Oct 06, 2010 |
| Contact name |
Viviane Tabar |
| E-mail(s) |
tabarv@mskcc.org
|
| Phone |
212-639-8249
|
| Organization name |
MSKCC
|
| Department |
neurosurgery
|
| Lab |
Viviane Tabar
|
| Street address |
411 east 67th street
|
| City |
new york |
| State/province |
NY |
| ZIP/Postal code |
10021 |
| Country |
USA |
| |
|
| Platform ID |
GPL5477 |
| Series (2) |
| GSE24452 |
Genetic abnormalities in various cell subpopulations of GBM brain tumors |
| GSE24558 |
GBM brain tumors |
|
