|
| Status |
Public on Jul 01, 2017 |
| Title |
Melanoma UACC cell line 62 |
| Sample type |
genomic |
| |
|
| Source name |
Melanoma UACC cell line
|
| Organism |
Homo sapiens |
| Characteristics |
disease state: Melanoma
tissue: Skin
|
| Treatment protocol |
NA
|
| Growth protocol |
Melanoma cell line was cultured in RPMI 1640 in the presence of 10% fetal bovine serum.
|
| Extracted molecule |
genomic DNA |
| Extraction protocol |
Genomic DNA was isolated from melanoma cells using Qiagen DNeasy Blood and Tissue kit
|
| Label |
C-Bio and A-DNP
|
| Label protocol |
200ng of genomic DNA, quantitated using Quant-iT™ PicoGreen dsDNA Reagent (ThermoFisher Scientific, Waltham, MA, USA) is denatured and neutralized, then isothermally amplified by whole-genome amplification. The amplified product is enzymatically fragmented, then precipitated and re-suspended.
|
| |
|
| Hybridization protocol |
Resuspended samples are denatured, then hybridized to locus-specific 50-mer oligonucleotides which are attached to 1-micron beads on the BeadChip. These 50-mer probes stop one base before the location of interest. Enzymatic single-base extension of the oligos on the BeadChip, using the captured DNA as a template, incorporates tagged nucleotides on the BeadChip, which are subsequently fluorophore-labeled during staining. The fluorescent label determines the genotype call for the sample.
|
| Scan protocol |
The Illumina iScan scans the BeadChips at two wavelengths to detect the fluorescent label, creating image files that are converted into genotype calls based on the detected fluorescence.
|
| Description |
Genomic DNA extracted from melanoma cell line was genotyped using HumanOmniExpress-12v1_A Genotyping BeadChips (Illumina)
UACC62
|
| Data processing |
Genomic DNA extracted from melanoma cell lines was genotyped using Illumina Infinium human OmniExpress array
|
| |
|
| Submission date |
May 23, 2017 |
| Last update date |
Jan 23, 2018 |
| Contact name |
Jiyeon Choi |
| Organization name |
NCI
|
| Street address |
9615 Medical Center Drive, Rm 3116
|
| City |
Rockville |
| State/province |
Maryland |
| ZIP/Postal code |
20850 |
| Country |
USA |
| |
|
| Platform ID |
GPL13135 |
| Series (2) |
| GSE99193 |
Genotype data from early passage UACC melanoma cell lines |
| GSE99221 |
A common intronic variant of PARP1 confers melanoma risk and mediates melanocyte growth and senescence escape via regulation of MITF |
|
