|
| Status |
Public on Jun 01, 2016 |
| Title |
genomic DNA from tumor tissue of OT16 |
| Sample type |
genomic |
| |
|
| Source name |
OT16_T
|
| Organism |
Homo sapiens |
| Characteristics |
subject id: OT16
patient age (yrs): 56
patient grade: F
disease: Oral tongue squamous cell carcinomas (OTSCC)
tissue type: tumor tissue from the oral tongue sub-site
tumor grade: PDSCC
tumor stage: T2N0M0
tumor nodal status: T2N0M0
survival status: Dead
overall survival (months): 18.87
disease-free survival (months): 11.30
|
| Extracted molecule |
genomic DNA |
| Extraction protocol |
genomic DNA was extracted and purified from tissue samples DNeasy Blood and Tissue kit (Qiagen, Valencia, CA) as per the manufacturer’s specifications
|
| Label |
Cy5 and Cy3
|
| Label protocol |
Standard Illumina Protocol
|
| |
|
| Hybridization protocol |
bisulphite converted DNA was used as template for target preparation to hybridize on the beadchip and was processed as per the manufacturer’s instructions following Infinium HD and Infinium protocol for HumanMethylation450K BeadChip (Illumina, San Diego, CA) respectively
|
| Scan protocol |
data were collected using the HiScan (Illumina) reader
|
| Description |
tumor tissue from the oral tongue sub-site
|
| Data processing |
GenomeStudio V2011.1 methylation module1.1.1 (Illumina)
|
| |
|
| Submission date |
Dec 01, 2015 |
| Last update date |
Jun 01, 2016 |
| Contact name |
binay panda |
| E-mail(s) |
binay@ganitlabs.in
|
| Organization name |
ganit labs foundation
|
| Street address |
1649A vasant kunj
|
| City |
new delhi |
| ZIP/Postal code |
110070 |
| Country |
India |
| |
|
| Platform ID |
GPL16304 |
| Series (2) |
| GSE75537 |
A minimal DNA 5-methylcytosine signature of oral tongue squamous cell carcinoma [methylation] |
| GSE75540 |
A minimal DNA 5-methylcytosine signature of oral tongue squamous cell carcinoma |
|
