|
| Status |
Public on May 24, 2011 |
| Title |
A549 Clone 3 vs. Clone 0 |
| Sample type |
genomic |
| |
|
| Channel 1 |
| Source name |
DNA isolated from A549 cell line, Clone 3.
|
| Organism |
Homo sapiens |
| Characteristics |
gender: male
cell type: derived from an adenocarcinoma of the lung
treatment group: 6Gy irradiated
cell line: A549
|
| Treatment protocol |
6Gy irradiated A549 cell line.
|
| Growth protocol |
The aneuploid A549 male non-small cell lung cancer (NSCLC) adenocarcinoma cell line was grown as monolayer in DMEM medium containing L-glutamine, 10% FCS (Invitrogen; Carlsbad, CA)
|
| Extracted molecule |
genomic DNA |
| Extraction protocol |
DNA was isolated from cultured cell lines at the same passage using standard phenol/chloroform DNA preparation technique. Whole genome amplified by GenomePlex (Sigma).
|
| Label |
Cy3
|
| Label protocol |
Probes were labelled by random priming. Detailed protocols are available at our website (Molecular Cytogenetics at the Max Planck Institute for Molecular Genetics)
|
| |
|
| Channel 2 |
| Source name |
DNA isolated from A549 cell line, Clone 0.
|
| Organism |
Homo sapiens |
| Characteristics |
gender: male
cell type: derived from an adenocarcinoma of the lung
treatment group: Sham (0Gy) irradiated
cell line: A549
|
| Treatment protocol |
Sham (0Gy) irradiated A549 cell line.
|
| Growth protocol |
The aneuploid A549 male non-small cell lung cancer (NSCLC) adenocarcinoma cell line was grown as monolayer in DMEM medium containing L-glutamine, 10% FCS (Invitrogen; Carlsbad, CA)
|
| Extracted molecule |
genomic DNA |
| Extraction protocol |
DNA was isolated from cultured cell lines at the same passage using standard phenol/chloroform DNA preparation technique. Whole genome amplified by GenomePlex (Sigma).
|
| Label |
Cy5
|
| Label protocol |
Probes were labelled by random priming. Detailed protocols are available at our website (Molecular Cytogenetics at the Max Planck Institute for Molecular Genetics)
|
| |
|
| |
| Hybridization protocol |
Hybridization was done overnight at 42 C in a slide booster (Advalytix, Brunnthal, Germany). Detailed protocols are available at our website (Molecular Cytogenetics at the Max Planck Institute for Molecular Genetics)
|
| Scan protocol |
Slides were scanned at 10 um resolution using an Agilent scanner. PMT settings: 100/100%
|
| Description |
Array CGH analysis of A549 Clone 3 vs. Clone 0
|
| Data processing |
TIFF images were analysed by Genepix 5.0 (Axon Instruments, Union City, CA) and raw intensities (gpr files) were imported into CGHPRO (Chen at al.,2005).Background intensities were not subtracted. Signal intensities were normalized by subgridd LOWESS. Aberrations were defined by Circular Binary Segmentation in combination with log2 ratio threshold of 0.2 and -0.2, respectively.
|
| |
|
| Submission date |
May 24, 2011 |
| Last update date |
May 24, 2011 |
| Contact name |
Artur Muradyan |
| E-mail(s) |
[email protected]
|
| Organization name |
Max Planck Institute for Molecular Genetics
|
| Street address |
Ihnestr. 73
|
| City |
Berlin |
| ZIP/Postal code |
14195 |
| Country |
Germany |
| |
|
| Platform ID |
GPL5114 |
| Series (1) |
| GSE24876 |
Acute high dose X-irradiation-induced genomic changes in a lung tumor cell line |
|
