|
| Status |
Public on Sep 08, 2014 |
| Title |
Genomic DNA from adenoma patient 34 |
| Sample type |
genomic |
| |
|
| Source name |
colorectal mucosa
|
| Organism |
Homo sapiens |
| Characteristics |
tissue: colorectal mucosa
colon region: left
disease status: adenoma
gender: female
|
| Extracted molecule |
genomic DNA |
| Extraction protocol |
Genomic DNA was extracted and purified from fresh-frozen samples using Qiagen DNeasy Kit according to standard instructions.
|
| Label |
Cy5 and Cy3
|
| Label protocol |
Standard Illumina Protocol.
|
| |
|
| Hybridization protocol |
Bisulphite converted DNA was amplified, fragmented and hybridised to Illumina Infinium Human Methylation450 Beadchip using standard Illumina protocol.
|
| Scan protocol |
Arrays were imaged using BeadArray Reader using standard recommended Illumina scanner setting.
|
| Description |
adenoma
16750
|
| Data processing |
Bio-conductor. Use SWAN for data normalization and Combat for batch-effect corrections.
|
| |
|
| Submission date |
Sep 19, 2013 |
| Last update date |
Sep 08, 2014 |
| Contact name |
Yanxin Luo |
| E-mail(s) |
yluo@fhcrc.org
|
| Phone |
206-667-1823
|
| Organization name |
Fred Hutchinson Cancer Research Center
|
| Department |
Clinical Research Division
|
| Lab |
D4-255
|
| Street address |
1100 Fairview Ave N
|
| City |
Seattle |
| State/province |
WA |
| ZIP/Postal code |
98109 |
| Country |
USA |
| |
|
| Platform ID |
GPL13534 |
| Series (1) |
| GSE48684 |
Global DNA methylation alterations reveal multiple pathways in the initiation and progression of colorectal cancer |
|
