|
| Status |
Public on May 01, 2016 |
| Title |
Fibroblast cell line F3, cell 6, sister cell 1 |
| Sample type |
genomic |
| |
|
| Channel 1 |
| Source name |
Reference DNA
|
| Organism |
Homo sapiens |
| Characteristics |
sample type: reference
gender: Male
|
| Treatment protocol |
Single fibroblasts were plated separately and the two cells that derived following a cell division were isolated individually.
|
| Growth protocol |
Primary fibroblasts were grown in 75-cm2 plastic flasks (BD Falcon, USA) under standard culture conditions in Dulbecco's Modified Eagle Medium/Nutrient Mixture F-12 (DMEM/F12) (Gibco, USA) medium complemented with 10% Fetal Bovine Serum (FBS) (Thermo Scientific, USA).
|
| Extracted molecule |
genomic DNA |
| Extraction protocol |
The genome of collected single cells was amplified using the Sureplex amplification system (BlueGnome/Illumina, USA).
|
| Label |
Cy3
|
| Label protocol |
The fluorescent labeling system (BlueGnome/Illumina) was used for sample labeling. Samples and Reference DNAs were labeled using Cy5 or Cy3 for 2-4h at 37░C. Samples were combined with the respective references prior to hybridization.
|
| |
|
| Channel 2 |
| Source name |
Primary single fibroblast, F3
|
| Organism |
Homo sapiens |
| Characteristics |
cell type: primary single fibroblast
gender: Female
|
| Treatment protocol |
Single fibroblasts were plated separately and the two cells that derived following a cell division were isolated individually.
|
| Growth protocol |
Primary fibroblasts were grown in 75-cm2 plastic flasks (BD Falcon, USA) under standard culture conditions in Dulbecco's Modified Eagle Medium/Nutrient Mixture F-12 (DMEM/F12) (Gibco, USA) medium complemented with 10% Fetal Bovine Serum (FBS) (Thermo Scientific, USA).
|
| Extracted molecule |
genomic DNA |
| Extraction protocol |
The genome of collected single cells was amplified using the Sureplex amplification system (BlueGnome/Illumina, USA).
|
| Label |
Cy5
|
| Label protocol |
The fluorescent labeling system (BlueGnome/Illumina) was used for sample labeling. Samples and Reference DNAs were labeled using Cy5 or Cy3 for 2-4h at 37░C. Samples were combined with the respective references prior to hybridization.
|
| |
|
| |
| Hybridization protocol |
200 ng of sample DNA and equal amount of commercially available reference DNA of the were labeled for 2 h by random primer labeling (BlueGnome/Illumina, USA) using Cy5- and Cy3-dCTPs, respectively.
|
| Scan protocol |
DNA-microarray scanner (Agilent Technologies, UK).
|
| Description |
Sureplex whole genome amplified single-cell DNA
131
|
| Data processing |
Separation of the duplex raw images by ImageViewer and the analysis of the data by BlueFuse v3.0 software (BlueGnome/Illumina, USA).
|
| |
|
| Submission date |
Nov 16, 2015 |
| Last update date |
May 01, 2016 |
| Contact name |
Eftychia Dimitriadou |
| E-mail(s) |
eftychia.dimitriadou@med.kuleuven.be
|
| Organization name |
KU Leuven
|
| Lab |
Cytogenetics and Genome Research
|
| Street address |
Herestraat 49, ON1, bus 602
|
| City |
Leuven |
| ZIP/Postal code |
3000 |
| Country |
Belgium |
| |
|
| Platform ID |
GPL21146 |
| Series (2) |
| GSE75065 |
Segmental chromosomal imbalances arise at high frequency in human fibroblasts (BAC array) |
| GSE75116 |
Segmental chromosomal imbalances arise at high frequency in human fibroblasts |
|
