|
| Status |
Public on Nov 11, 2011 |
| Title |
Breast cancer tissue Replicate 9 |
| Sample type |
genomic |
| |
|
| Channel 1 |
| Source name |
methylated CpG-island recovery assay (MIRA) enriched,breast cancer tissue,breast cancer patient9
|
| Organism |
Homo sapiens |
| Characteristics |
tissue: breast cancer
patient: 9
age: 44 years
sample type: methylated
|
| Extracted molecule |
genomic DNA |
| Extraction protocol |
DNA was isolated from fresh frozen tissues using standard phenol/chloroform method.
|
| Label |
cy5
|
| Label protocol |
The products of whole genome amplification from the total input DNA without MBD enrichment and from methylation-enriched DNA were purified by using DNA purification kit, respectively. The purified DNA fragments were then labeled with cy3-dCTP or cy5-dCTP with Klenow enzyme (Takara) according to the instruction of the manufacturer.
|
| |
|
| Channel 2 |
| Source name |
input,breast cancer tissue,breast cancer patient9
|
| Organism |
Homo sapiens |
| Characteristics |
tissue: breast cancer
patient: 9
sample type: Input
|
| Extracted molecule |
genomic DNA |
| Extraction protocol |
DNA was isolated from fresh frozen tissues using standard phenol/chloroform method.
|
| Label |
cy3
|
| Label protocol |
The products of whole genome amplification from the total input DNA without MBD enrichment and from methylation-enriched DNA were purified by using DNA purification kit, respectively. The purified DNA fragments were then labeled with cy3-dCTP or cy5-dCTP with Klenow enzyme (Takara) according to the instruction of the manufacturer.
|
| |
|
| |
| Hybridization protocol |
According to the instructions of Agilent Oligo aCGH Hybridization Kit
|
| Scan protocol |
Scanned on an Agilent G2505C scanner.
Images were quantified using Agilent Feature Extraction Software (version 10.7.3.1).
|
| Description |
Biological replicate 9 of 10,cancer tissue,breast cancer patient
|
| Data processing |
Agilent GeneSpring GX 11.5 was used for background subtraction and LOWESS normalization. Following global mean normalization, probes with an intensity <400 were discarded from further analysis.
|
| |
|
| Submission date |
Nov 03, 2011 |
| Last update date |
Jan 20, 2012 |
| Contact name |
wang liang |
| E-mail(s) |
wangliangkexue@163.com
|
| Organization name |
BioChainBJ
|
| Street address |
7A North Yongchang Road BDA
|
| City |
Beijing |
| ZIP/Postal code |
100176 |
| Country |
China |
| |
|
| Platform ID |
GPL14835 |
| Series (2) |
| GSE33445 |
DNA hypermethylation in breast cancer: breast cancer tissues vs. normal breast tissues |
| GSE33450 |
DNA hypermethylation and gene expression in breast cancer: breast cancer tissues vs. normal breast tissues |
|
