|
| Status |
Public on Jun 10, 2012 |
| Title |
HCT116_DKO_rep3_cholangiocarcinoma_study |
| Sample type |
genomic |
| |
|
| Source name |
Genomic DNA from HCT116 DNMT1;DNMT3 double knockout cell line
|
| Organism |
Homo sapiens |
| Characteristics |
disease: colorectal cancer
cell line: HCT116 DNMT1;DNMT3 double knockout
idh1/2 genotype: wildtype
|
| Extracted molecule |
genomic DNA |
| Extraction protocol |
Genomic DNA was extracted using the QIAamp DNA mini kit, according to the manufacturer's protocol
|
| Label |
Cy5 and Cy3
|
| Label protocol |
Standard Illumina protocol
|
| |
|
| Hybridization protocol |
Genomic DNA was bisulfite converted with the Zymo Research EZ DNA Methylation kit. Bisulfite converted DNA was amplified, fragmented and hybridized to Illumina Human Methylation450 Beadchip using standard Illumina protocol
|
| Scan protocol |
BeadChips were imaged with the Illumina HiScan scanner using standard settings
|
| Description |
D10_Unmethylated
|
| Data processing |
Mean background-corrected and normalized signal intensities of the methylation (M) and unmethylated (U) estimates for each CpG locus were extracted using Illumina BeadStudio software
|
| |
|
| Submission date |
Sep 13, 2011 |
| Last update date |
Jun 10, 2012 |
| Contact name |
Derek Chiang |
| E-mail(s) |
[email protected]
|
| Organization name |
University of North Carolina
|
| Department |
Department of Genetics
|
| Street address |
UNC Lineberger Cancer Center, 450 West Drive, CB #7295
|
| City |
Chapel Hill |
| State/province |
NC |
| ZIP/Postal code |
27599-7295 |
| Country |
USA |
| |
|
| Platform ID |
GPL13534 |
| Series (2) |
| GSE32079 |
Mutations in IDH1 and IDH2 are associated with DNA hypermethylation in intrahepatic cholangiocarcinomas |
| GSE32286 |
DNA hypermethylation in intrahepatic cholangiocarcinomas and glioblastomas |
|
