|
|
| Status |
Public on Apr 09, 2015 |
| Title |
CACO2 |
| Sample type |
genomic |
| |
|
| Source name |
Human colorectal cancer
|
| Organism |
Homo sapiens |
| Characteristics |
cell line: CACO2
msi status: S
cimp status: CIMP-
|
| Extracted molecule |
genomic DNA |
| Extraction protocol |
AllPrep DNA/RNA Mini Kit (QUAGEN)
|
| Label |
C-Bio and A-DNP
|
| Label protocol |
Standard Illumina protocols for Human 610w-Quad chip
|
| |
|
| Hybridization protocol |
Standard Illumina protocols for Human 610w-Quad chip
|
| Scan protocol |
Standard Illumina protocols for Human 610w-Quad chip
|
| Description |
Genomic DNA extracted from colorectal cancer cell lines was genotyped using Human610-Quad v1.0 Genotyping BeadChips (Illumina).
|
| Data processing |
Log R ratio (LRR) and B allele frequency (BAF) were generated using using GenomeStudio (Illumina). DNA copy-number assignment was performed using OncoSNPv2.1.
Series supplementary file matrix_processed.txt value definition: Genotype: AA,AB,BB up to a copy number of 6 (i.e. AAAAAA) or NC (no call). Copy number is for the absolute value and not relative to ploidy.
|
| |
|
| Submission date |
Mar 12, 2014 |
| Last update date |
Apr 09, 2015 |
| Contact name |
Oliver M Sieber |
| E-mail(s) |
sieber.o@wehi.edu.au
|
| Organization name |
Walter and Eliza Hall Institute of Medical Research
|
| Street address |
1G Royal Parade
|
| City |
Melbourne |
| ZIP/Postal code |
3052 |
| Country |
Australia |
| |
|
| Platform ID |
GPL8887 |
| Series (1) |
| GSE55832 |
Colorectal cancer cell lines are representative models of the main molecular subtypes of primary cancer |
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