|
| Status |
Public on Apr 12, 2024 |
| Title |
Subject_3_pre_NeoVax_region_1 |
| Sample type |
RNA |
| |
|
| Source name |
Glioblastoma resected tumor pre-NeoVax
|
| Organism |
Homo sapiens |
| Characteristics |
tissue: primary human glioblastoma
subect_id: Subject_3
brain tumor region: Region_1
neovax status: Pre_NeoVax
age (years): 62
Sex: female
overall survival (days): 486
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Tumor RNA was extracted using the High Pure isolation kit (Roche Life Science)
|
| Label |
NA
|
| Label protocol |
NA
|
| |
|
| Hybridization protocol |
30 ng Dnase-treated RNA was used as input for CAR-T Characterization gene expression panel from NanoString Technologies. Hybridization with reporter CodeSet and capture ProbeSet was performed according to manufacturer's protocl for 16 hours at 65 degrees C. Hybridized samples were then processed on the nCounter MAX/FLEX prpe station using high sensitivity setting.
|
| Scan protocol |
Cartridges were scanned on nCounter digitial analyzer at Max setting (555 fields of view)
|
| Description |
We obtained multiple regions from resected brain tumor of Subject 3 prior to NeoVax administration and one biopsy of the brain tumor after NeoVax administration
|
| Data processing |
Digital counts were normalized using a combination of Positive Control Normalization, which uses synthetic positive control targets, and CodeSet Content Normalization, which uses housekeeping genes, to apply a sample-specific correction factor to all the target probes within that sample lane. All normalization techniques were applied in nSolver software according to manufacturer's protocol.
|
| |
|
| Submission date |
Jul 21, 2023 |
| Last update date |
Apr 12, 2024 |
| Contact name |
Katherine E Miller |
| E-mail(s) |
katherine.miller@nationwidechildrens.org
|
| Organization name |
Nationwide Children's Hospital
|
| Department |
Institute for Genomic Medicine
|
| Street address |
700 Children's Dr.
|
| City |
Columbus |
| State/province |
OH |
| ZIP/Postal code |
43215 |
| Country |
USA |
| |
|
| Platform ID |
GPL29417 |
| Series (2) |
| GSE238010 |
Integration of multisector molecular characterization into a personalized peptide vaccine approach for patients with newly diagnosed glioblastoma; Gene expression using NanoString CAR-T Characterization Panel |
| GSE238012 |
Primary human glioblastoma |
|
