|
Status |
Public on Nov 26, 2011 |
Title |
96-07685 (F) |
Sample type |
genomic |
|
|
Channel 1 |
Source name |
Commercial DNAs
|
Organism |
Homo sapiens |
Characteristics |
source: Clontech Laboratories Inc gender: female
|
Treatment protocol |
Fresh-frozen (Tianjin cohort) or formalin-fixed and paraffin-embedded (MD Anderson cohort)
|
Growth protocol |
Human primary tumor samples obtained by surgical resection
|
Extracted molecule |
genomic DNA |
Extraction protocol |
Genomic DNA was extracted using the DNeasy kit from Qiagen cat# 69506 with minor modifications as mentioned in the Agilent aCGH protocol ULS Labeling Version 3.0.
|
Label |
Cy3
|
Label protocol |
Standard protocol for labeling genomic DNA
|
|
|
Channel 2 |
Source name |
MPNST
|
Organism |
Homo sapiens |
Characteristics |
source: MDACC gender: female
|
Treatment protocol |
Fresh-frozen (Tianjin cohort) or formalin-fixed and paraffin-embedded (MD Anderson cohort)
|
Growth protocol |
Human primary tumor samples obtained by surgical resection
|
Extracted molecule |
genomic DNA |
Extraction protocol |
Genomic DNA was extracted using the DNeasy kit from Qiagen cat# 69506 with minor modifications as mentioned in the Agilent aCGH protocol ULS Labeling Version 3.0.
|
Label |
Cy5
|
Label protocol |
Standard protocol for labeling genomic DNA
|
|
|
|
Hybridization protocol |
Samples were hybridized according to Agilent's protocol
|
Scan protocol |
Arrays were scanned with Agilent's scanner using manufacturer's instructions.
|
Data processing |
Data were extracted using Agilent Feature Extraction software (CGH-v4_91). Logratios were lowess-normalized. Ratio is always tumor/ref; dye-swaps were performed as necessary.
|
|
|
Submission date |
Nov 22, 2011 |
Last update date |
Nov 29, 2011 |
Contact name |
Antti Ylipää |
E-mail(s) |
antti.ylipaa@tut.fi
|
Organization name |
Tampere University of Technology
|
Street address |
Korkeakoulunkatu 1
|
City |
Tampere |
ZIP/Postal code |
33101 |
Country |
Finland |
|
|
Platform ID |
GPL5477 |
Series (1) |
GSE33881 |
Genomic characterization of the MPNST |
|