|
| Status |
Public on May 12, 2022 |
| Title |
Patient9 |
| Sample type |
RNA |
| |
|
| Source name |
Melanoma
|
| Organism |
Homo sapiens |
| Characteristics |
tissue: Melanoma
nf1 status: MUT
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Tumor samples were dissected and de-paraffinized using the same methods described in the DNA analysis.
RNA was isolated using the Qiagen RNeasy DSP FFPE Kit, and melanotic samples were purified as the DNA samples were.
|
| Label |
n/a
|
| Label protocol |
n/a
|
| |
|
| Hybridization protocol |
Quality metrics for extracted RNA included both quantitative and qualitative parameters. RNA quantification was performed with the Qubit 2.0 Fluorometer (Life Technologies).
|
| Scan protocol |
Qualitative RNA integrity was performed with the Agilent 2100 Bioanalyzer System (Agilent software, Santa Clara, CA, USA) and corresponding RNA kits. Electropherograms showing fragment distribution were reviewed; only cases with an RNA integrity number of >3 were selected.
|
| Description |
08-235
Gene expression of the nCounter PanCancer IO 360 panel for the tumor, microenvironment and immune response.
|
| Data processing |
RCC files for tumor samples are direct outputs from NanoString runs. We then extract raw counts for each gene in a sample in R.
|
| |
|
| Submission date |
May 11, 2022 |
| Last update date |
May 12, 2022 |
| Contact name |
Department of Pathology NYU Langone Health |
| Organization name |
NYU Langone Health Ambulatory Care Center
|
| Department |
Department of Pathology
|
| Street address |
240 East 38th Street
|
| City |
New York |
| State/province |
NY |
| ZIP/Postal code |
10016 |
| Country |
USA |
| |
|
| Platform ID |
GPL27956 |
| Series (1) |
| GSE202806 |
Transcriptomic analyses of NF1-mutant melanoma |
|
