|
| Status |
Public on Aug 10, 2016 |
| Title |
patient 045 NSCLC core needle biopsy [045_546] |
| Sample type |
genomic |
| |
|
| Source name |
NSCLC core needle biopsy
|
| Organism |
Homo sapiens |
| Characteristics |
patient diagnosis: Lung adenocarcinoma
smoking status: Never
|
| Extracted molecule |
genomic DNA |
| Extraction protocol |
Genomic DNA was isolated from all samples (n=435) using the QIAamp DNA kit from Qiagen according to the manufacturer’s instructions.
|
| Label |
C-Bio and A-DNP
|
| Label protocol |
Genomic DNA samples (200 ng) were processed using the Illumina Infinium HD assay protocol.
|
| |
|
| Hybridization protocol |
Genomic DNA samples (200 ng) were processed using the Illumina Infinium HD assay protocol.
|
| Scan protocol |
BeadChip images were then captured using an Illumina iScan system.
|
| Description |
Genomic DNA extracted was genotyped using Illumina HumanOmniExpressExome-8 v1.2 Genotyping BeadChips.
|
| Data processing |
Raw genotyping data was generated using the Illumina GenomeStudio Genotyping (GT) Module Software.
Genotype calls, gc score, theta, R, B-allele frequency, and log R were obtained from csv output files from GenomeStudio Genotyping (GT) Module Software.
|
| |
|
| Submission date |
Apr 21, 2016 |
| Last update date |
Aug 10, 2016 |
| Contact name |
Yasminka Aleksandra Jakubek |
| E-mail(s) |
[email protected]
|
| Organization name |
University of Texas MD Anderson Cancer Center
|
| Department |
Epidemiology
|
| Lab |
Scheet
|
| Street address |
1155 Pressler St
|
| City |
Houston |
| State/province |
TX |
| ZIP/Postal code |
77030 |
| Country |
USA |
| |
|
| Platform ID |
GPL20333 |
| Series (1) |
| GSE80519 |
Genomic landscape affected by allelic imbalance in the cancerization filed of normal appearing airway |
|
