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Status |
Public on Dec 01, 2009 |
Title |
COG.T.ALL.28 |
Sample type |
genomic |
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Channel 1 |
Source name |
T-ALL
|
Organism |
Homo sapiens |
Characteristics |
age: 15 gender: Male treatment regimen: COG 9404
|
Extracted molecule |
genomic DNA |
Extraction protocol |
QIAGEN DNeasy
|
Label |
Cy3
|
Label protocol |
Random primers and the exo-Klenow fragment -based ENZO CGH Labeling Kit (ENZO LIfe Sciences p/n ENZ-42671) was used to differentially label the test DNA with Cy3-labeled nucleotides and the reference DNA - with Cy5. See for detailes: Protopopov A, Feng B, Chin L. Full Complexity Genomic Hybridization on 60-mer Oligonucleotide Microarrays for Array Comparative Genomic Hybridization (aCGH). Methods Mol Biol.2008;439:87-100.
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Channel 2 |
Source name |
male DNA
|
Organism |
Homo sapiens |
Characteristics |
male DNA G147A (Promega, Madison, WI)
|
Biomaterial provider |
Promega, Madison, WI
|
Extracted molecule |
genomic DNA |
Extraction protocol |
male DNA G147A (Promega, Madison, WI)
|
Label |
Cy5
|
Label protocol |
Random primers and the exo-Klenow fragment -based ENZO CGH Labeling Kit (ENZO LIfe Sciences p/n ENZ-42671) was used to differentially label the test DNA with Cy3-labeled nucleotides and the reference DNA - with Cy5. See for detailes: Protopopov A, Feng B, Chin L. Full Complexity Genomic Hybridization on 60-mer Oligonucleotide Microarrays for Array Comparative Genomic Hybridization (aCGH). Methods Mol Biol.2008;439:87-100.
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|
|
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Hybridization protocol |
Agilent Oligo aCGH Hybridization Kit (p/n 5188-5220) and Agilent Oligo aCGH Wash Buffers (p/n 5188-5226) were used according to manufacturer protocols.
|
Scan protocol |
Agilent G2565BA Scanner was used according to manufacturer protocol. Data extraction has been performed with Agilent G2567AA Feature Extraction Software v9.1.
|
Description |
none
|
Data processing |
Feature extraction data was obtained using Agilent G2567AA Feature Extraction Software, normalized using LOcally-WEighted regression Scatterplot Smoother
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|
|
Submission date |
Feb 23, 2009 |
Last update date |
Feb 24, 2009 |
Contact name |
Alexei Protopopov |
Organization name |
UT MD Anderson Cancer Center
|
Department |
IACS
|
Street address |
1901 East Rd
|
City |
Houston |
State/province |
TX |
ZIP/Postal code |
77054 |
Country |
USA |
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Platform ID |
GPL4091 |
Series (1) |
GSE14959 |
PTEN and the PI3K/AKT Pathway in T-Cell Acute Lymphoblastic Leukemia |
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