|
| Status |
Public on Apr 13, 2022 |
| Title |
Gastric benign sample 4GB-033 |
| Sample type |
genomic |
| |
|
| Source name |
Gastric benign sample 4GB-033
|
| Organism |
Homo sapiens |
| Characteristics |
tissue: Gastric benign
patient id: 4GB-033
|
| Extracted molecule |
genomic DNA |
| Extraction protocol |
DNA extraction was done with a QIAamp® micro kit (QIAGEN) according to the manufacturer’s instructions. The extractions were modified to include an initial incubation at 95°C for 15 min followed by 5 min at room temperature as described previously, before being digested with proteinase K for 3 days at 56°C in a water-bath with addition of fresh enzyme at 24 h intervals.
|
| Label |
Biotin
|
| Label protocol |
As per manufacturer (Affymetrix).
|
| |
|
| Hybridization protocol |
DNA was restriction digested, PCR amplified, fragmented, labeled and hybridized to each array according to the manufacturer's instructions.
|
| Scan protocol |
The Arrays were then washed using Affymetrix fluidics station 450, and scanned using the GeneChip Scanner 3000 7G.
|
| Description |
Hybridized to Cytoscan HD Affymetrix
|
| Data processing |
The array image was acquired using Affymetrix GeneChip® Command Console (version v3.2.2). Copy number values were extracted and converted from CEL files into CYCHP files using Chromosome Analysis Suite software (v.3.2.0.1252). Reference file was CytoScan HD Array.na33.r3, ChAS Browser was NefAffx Build hg19 (20170803).
|
| |
|
| Submission date |
Jul 13, 2018 |
| Last update date |
Apr 13, 2022 |
| Contact name |
Martha Eugenia Ruiz-Tachiquín |
| E-mail(s) |
mertachiquin@gmail.com
|
| Organization name |
Centro Médico Nacional Siglo XXI-IMSS
|
| Department |
Tercer piso. UMAE-Hospital de Oncología
|
| Lab |
Unidad de Investigación Médica en Enfermedades Oncológicas
|
| Street address |
Av. Cuauhtémoc No.330, Col. Doctores, Deleg. Cuauhtémoc.
|
| City |
Ciudad de México |
| State/province |
CIudad de México |
| ZIP/Postal code |
06720 |
| Country |
Mexico |
| |
|
| Platform ID |
GPL16131 |
| Series (1) |
| GSE117093 |
Gastric cancer samples of Mexican patients |
|
