|
| Status |
Public on Jun 08, 2013 |
| Title |
mutant2 [methylation] |
| Sample type |
genomic |
| |
|
| Source name |
HCT116 mutant derived cell line with altered DNA methylation
|
| Organism |
Homo sapiens |
| Characteristics |
cell line: HCT116
genotype/variation: mutant with altered DNA methylation
|
| Growth protocol |
Cells were cultured in McCoy's 5A medium supplemented with 10% FBS and antibiotics.
|
| Extracted molecule |
genomic DNA |
| Extraction protocol |
Genomic DNA was prepared using the DNeasy Tissue kit following manufacturer’s instructions
|
| Label |
Cy5 and Cy3
|
| Label protocol |
Standard Illumina Protocol
|
| |
|
| Hybridization protocol |
bisulphite converted DNA was amplified, fragmented and hybridised to Illumina Infinium Human Methylation 450k Beadchip using standard Illumina protocol
|
| Scan protocol |
Arrays were imaged using a HiScanSQ using standard recommended Illumina scanner setting
|
| Description |
SAMPLE 5
|
| Data processing |
GenomeStudio V2011.1
HY_450k_signal_intensity.txt (linked as supplementary file on Series record) reports: Unmethylated and methylated signal intensities with background correction normalized to Illumina controls.
|
| |
|
| Submission date |
Nov 16, 2012 |
| Last update date |
Mar 27, 2019 |
| Contact name |
Charles David Warden |
| Organization name |
City of Hope
|
| Department |
Department of Molecular and Cellular Biology
|
| Street address |
1500 East Duarte Rd
|
| City |
Duarte |
| State/province |
CA |
| ZIP/Postal code |
91010 |
| Country |
USA |
| |
|
| Platform ID |
GPL13534 |
| Series (2) |
| GSE42308 |
COHCAP HCT116 Mutant Comparison [methylation] |
| GSE42310 |
COHCAP: City of Hope CpG Island Analysis Pipeline |
|
