|
| Status |
Public on Jan 30, 2011 |
| Title |
MDS tumor cells patient 21 |
| Sample type |
genomic |
| |
|
| Channel 1 |
| Source name |
MDS tumor cells, patient 21
|
| Organism |
Homo sapiens |
| Characteristics |
gender: M
International Prognostic Scoring System (IPSS): 1
extract protocol: Qiagen
|
| Treatment protocol |
Hypotonic treatment to eliminate red blood cells and fixation with methanol-acetic acid (3:1) of white blood cells.
|
| Growth protocol |
Bone marrow cells were cultured unstimulated 24, 48 or 72 hrs in RPMI or Marrow Max Medium and 10% FCS. Colcemid was used to arrest cell cycle in metaphases.
|
| Extracted molecule |
genomic DNA |
| Extraction protocol |
For samples marked Qiagen: DNA was extracted from methanol-acetic acid fixed cells with QIAamp DNA Blood Midi Kit (Qiagen).
For samples marked PC: DNA was extracted from methanol-acetic acid fixed cells with Proteinase K, SDS and Phenol-Chloroform.
|
| Label |
Cy5
|
| Label protocol |
Protocol Version 5.0, June 2007, Agilent.Same gender reference/control DNA was purchased from Promega as pool.
|
| |
|
| Channel 2 |
| Source name |
control DNA
|
| Organism |
Homo sapiens |
| Characteristics |
reference: Pooled, same gender reference/control DNA (Promega)
|
| Treatment protocol |
Hypotonic treatment to eliminate red blood cells and fixation with methanol-acetic acid (3:1) of white blood cells.
|
| Growth protocol |
Bone marrow cells were cultured unstimulated 24, 48 or 72 hrs in RPMI or Marrow Max Medium and 10% FCS. Colcemid was used to arrest cell cycle in metaphases.
|
| Extracted molecule |
genomic DNA |
| Extraction protocol |
For samples marked Qiagen: DNA was extracted from methanol-acetic acid fixed cells with QIAamp DNA Blood Midi Kit (Qiagen).
For samples marked PC: DNA was extracted from methanol-acetic acid fixed cells with Proteinase K, SDS and Phenol-Chloroform.
|
| Label |
Cy3
|
| Label protocol |
Protocol Version 5.0, June 2007, Agilent.Same gender reference/control DNA was purchased from Promega as pool.
|
| |
|
| |
| Hybridization protocol |
Protocol Version 5.0, June 2007, Agilent.
|
| Scan protocol |
Images were quantified using Agilent Feature Extraction Software (version 10.7.1.1).
|
| Description |
Agilent Feature Extraction file: sample_21.txt
MDS tumor cells
|
| Data processing |
Agilent Feature Extraction Software (version 10.7.1.1) was used for background subtraction and LOWESS normalization.
|
| |
|
| Submission date |
Oct 08, 2010 |
| Last update date |
Jan 30, 2011 |
| Contact name |
Brigitte Royer-Pokora |
| E-mail(s) |
royer@uni-duesseldorf.de
|
| Organization name |
Institute of Human Genetics and Anthropology, Heinrich-Heine-University Duesseldorf
|
| Street address |
Universitätsstr. 1
|
| City |
Duesseldorf |
| ZIP/Postal code |
40225 |
| Country |
Germany |
| |
|
| Platform ID |
GPL10123 |
| Series (1) |
| GSE24602 |
Comprehensive array CGH of normal karyotype Myelodysplastic syndrome reveals hidden recurrent and individual genomic copy number aberrations with prognostic relevance |
|
