|
| Status |
Public on Mar 12, 2015 |
| Title |
EC_1458_ChipC_5mC_Expt1 |
| Sample type |
genomic |
| |
|
| Source name |
Genomic DNA, sonicated, anti-5mC
|
| Organism |
Homo sapiens |
| Characteristics |
treatment: IP
tissue: testicular embryonic carcinoma
source tissue: testis
antibody: Anti-5mC
|
| Treatment protocol |
Untreated and frozen before DNA extraction
|
| Growth protocol |
Primary tumors and normal tissues without any culture
|
| Extracted molecule |
genomic DNA |
| Extraction protocol |
Genomic DNA was directly extracted from tissues using column-based purification method
|
| Label |
Biotin
|
| Label protocol |
Samples were prepared and hybridized to GeneChip Human Tiling 2.0R Array according to Affymetrix specifications.
|
| |
|
| Hybridization protocol |
Samples were prepared and hybridized to GeneChip Human Tiling 2.0R Array according to Affymetrix specifications.
|
| Scan protocol |
The tiling arrays were scanned using an Affymetrix GeneChip Scanner GCS3000 according to manufacturer's instruction.
|
| Description |
1458 C_pvalue_Hs_NCBIv36.BED
embryonal carcinoma
|
| Data processing |
The signal intensity data was analyzed with the Affymetrix Tiling Analysis Software (version 1.1) using parameters: two-sided test, 250 bp bandwidth and perfect match only.
The resulting BED files are generated by the Affymetrix Tiling Analysis Software (version 1.1) using parameters: Threshold = 20 (p < 0.01), Gap = 100.
|
| |
|
| Submission date |
Mar 11, 2015 |
| Last update date |
Mar 12, 2015 |
| Contact name |
Hoi-Hung Cheung |
| E-mail(s) |
cheunghh@cuhk.edu.hk
|
| Phone |
(852)39439796
|
| Organization name |
The Chinese University of Hong Kong
|
| Department |
School of Biomedical Sciences
|
| Street address |
Rm.708A, LKS Integrated Biomedical Sciences Bldg.
|
| City |
CUHK, Shatin |
| State/province |
N.T. |
| ZIP/Postal code |
n.a. |
| Country |
Hong Kong |
| |
|
| Platform ID |
GPL4912 |
| Series (1) |
| GSE66784 |
Genome-wide DNA methylation analysis on testicular embryonal carcinoma |
|
