|
| Status |
Public on Feb 19, 2019 |
| Title |
E3 (Agilent) |
| Sample type |
genomic |
| |
|
| Channel 1 |
| Source name |
High-grade intraurothelial neoplasia (HGIN)
|
| Organism |
Homo sapiens |
| Characteristics |
tumor stage: High-grade intraurothelial neoplasia (HGIN)
tissue: Human bladder
|
| Extracted molecule |
genomic DNA |
| Extraction protocol |
DNA from each sample was extracted using Qiagen kit
|
| Label |
Cy5
|
| Label protocol |
Agilent Oligonucleotide Array-Based CGH for Genomic DNA Analysis ULS Labeling for Blood, Cells, Tissues or FFPE (with a High Throughput option) Protocol Version 3.0
|
| |
|
| Channel 2 |
| Source name |
Normal urothelium from ureter (reference)
|
| Organism |
Homo sapiens |
| Characteristics |
tissue: Human ureter
|
| Extracted molecule |
genomic DNA |
| Extraction protocol |
DNA from each sample was extracted using Qiagen kit
|
| Label |
Cy3
|
| Label protocol |
Agilent Oligonucleotide Array-Based CGH for Genomic DNA Analysis ULS Labeling for Blood, Cells, Tissues or FFPE (with a High Throughput option) Protocol Version 3.0
|
| |
|
| |
| Hybridization protocol |
Microarray from Agilent Technologies
|
| Scan protocol |
Agilent Technologies Scanner G2505B US23502362 using feature extraction 9.5
|
| Description |
Genomic DNA extracted from bladder samples was genotyped using a custom aCGH array.
|
| Data processing |
Agilent Feature Extraction Software (9.1.3.1) was used for background subtraction and normalization.
|
| |
|
| Submission date |
Jan 25, 2019 |
| Last update date |
Feb 19, 2019 |
| Contact name |
Hui Yao |
| E-mail(s) |
[email protected]
|
| Organization name |
MD Anderson Cancer Center
|
| Department |
Bioinformatics and Computational Biology
|
| Street address |
1515 Holcombe Blvd.
|
| City |
Houston |
| State/province |
TX |
| ZIP/Postal code |
77030 |
| Country |
USA |
| |
|
| Platform ID |
GPL9886 |
| Series (1) |
| GSE125286 |
Genomic Whole-Organ Map of Mucosal Field Effects Initiating Human Bladder Carcinogenesis |
|
