|
| Status |
Public on Dec 20, 2019 |
| Title |
CRC ≤ 45 years. Sample 106 |
| Sample type |
genomic |
| |
|
| Channel 1 |
| Source name |
Rectum
|
| Organism |
Homo sapiens |
| Characteristics |
Sex: Female
age: 39
molecular classification: MSS y CIMP-Low/0
|
| Extracted molecule |
genomic DNA |
| Extraction protocol |
DNA was extracted using proteinase K digestion, phenol/chloroform extraction, Phase Lock Gel Light (Eppendorf AG, Hamburg, Germany), and ethanol precipitation.
|
| Label |
Cy3
|
| Label protocol |
One microgram of genomic DNA(gDNA) from each test and reference sample(Human Genomic DNA [Male G1471/FemaleG1521] from Promega Corporation, Madison, WI) was labeled using the NimbleGen Dual-C olor DNALabeling Kit.
|
| |
|
| Channel 2 |
| Source name |
Human Genomic DNA [Male G1471/FemaleG1521] from Promega Corporation
|
| Organism |
Homo sapiens |
| Characteristics |
sample type: reference
|
| Extracted molecule |
genomic DNA |
| Extraction protocol |
DNA was extracted using proteinase K digestion, phenol/chloroform extraction, Phase Lock Gel Light (Eppendorf AG, Hamburg, Germany), and ethanol precipitation.
|
| Label |
Cy5
|
| Label protocol |
One microgram of genomic DNA(gDNA) from each test and reference sample(Human Genomic DNA [Male G1471/FemaleG1521] from Promega Corporation, Madison, WI) was labeled using the NimbleGen Dual-C olor DNALabeling Kit.
|
| |
|
| |
| Hybridization protocol |
Hybridization was carried out in a Roche NimbleGen Hybridisation Chamber (Roche NimbleGen, Inc.) for 48 h.
|
| Scan protocol |
Slides were washed and scanned using a NimbleGenMS 200 Microarray Scanner (Roche NimbleGen, Inc.).
|
| Data processing |
Array image files produced by the MS 200 Data Collection Software were imported into DEVA v1.2.1(Roche NimbleGen Inc.) for analysis. In addition,segmentation analysis was performed in all cases byusing circular binary segmentation (CBS) available in waviCGH software (http://wavi.bioinfo.cnio.es/).
|
| |
|
| Submission date |
Dec 18, 2017 |
| Last update date |
Dec 20, 2019 |
| Contact name |
Juan Luis Garcia |
| E-mail(s) |
jlgarcia@usal.es
|
| Phone |
+34923294812
|
| Organization name |
Centro de Investigación del Cáncer IBMCC-CIC
|
| Lab |
Laboratorio 12
|
| Street address |
Campus Miguel de Unamuno
|
| City |
Salamanca |
| State/province |
Salamanca |
| ZIP/Postal code |
37007 |
| Country |
Spain |
| |
|
| Platform ID |
GPL10197 |
| Series (1) |
| GSE108220 |
Unsupervised Analysis of Array Comparative Genomic Hybridization Data from Early-Onset Colorectal Cancer Reveals Equivalence with Molecular Classification and Phenotypes |
|
