|
| Status |
Public on Jan 17, 2012 |
| Title |
Colon cancer sample 3 using 250ng input DNA |
| Sample type |
genomic |
| |
|
| Channel 1 |
| Source name |
colon cancer
|
| Organism |
Homo sapiens |
| Characteristics |
sample id: 3
tissue: Colon cancer, FFPE
input dna: 250ng
|
| Extracted molecule |
genomic DNA |
| Extraction protocol |
DNA isolation protocol available via www.vumc.nl/microarrays. Also described in Buffart et al, J Pathol. 2007 Jan;211(1):45-51
|
| Label |
Cy5
|
| Label protocol |
DNA labeling protocol according to Enzo Life Sciences
|
| |
|
| Channel 2 |
| Source name |
Normal colon mucosa
|
| Organism |
Homo sapiens |
| Characteristics |
sample id: 3
tissue: Normal colon mucosa (Patient own normal, FFPE)
input dna: 250ng
|
| Extracted molecule |
genomic DNA |
| Extraction protocol |
DNA isolation protocol available via www.vumc.nl/microarrays. Also described in Buffart et al, J Pathol. 2007 Jan;211(1):45-51
|
| Label |
Cy3
|
| Label protocol |
DNA labeling protocol according to Enzo Life Sciences
|
| |
|
| |
| Hybridization protocol |
Standard NimbleGen protocol
|
| Scan protocol |
Standard NimbleGen protocol
|
| Description |
Sample3
383039A04_crop_635.pair [ch1 raw data file]
383039A04_crop_532.pair [ch2 raw data file]
|
| Data processing |
Median normalization in R/Bioconductor
|
| |
|
| Submission date |
Jun 21, 2011 |
| Last update date |
Jan 17, 2012 |
| Contact name |
Daoud Sie |
| E-mail(s) |
[email protected]
|
| Phone |
+31 20 4442428
|
| Organization name |
Vrije Universiteit Medical Center
|
| Department |
Pathology
|
| Lab |
Microarray Core Facility
|
| Street address |
De Boelelaan 1117
|
| City |
Amsterdam |
| ZIP/Postal code |
1081 HV |
| Country |
Netherlands |
| |
|
| Platform ID |
GPL10197 |
| Series (2) |
| GSE30120 |
Three commercial array platforms compared for DNA copy number detection with DNA isolated from FFPE tissue [NimbleGen] |
| GSE30123 |
Three commercial array platforms compared for DNA copy number detection with DNA isolated from FFPE tissue |
|
