|
| Status |
Public on Jul 01, 2013 |
| Title |
N1 Cy3 vs. H3 Cy5 |
| Sample type |
genomic |
| |
|
| Channel 1 |
| Source name |
N1
|
| Organism |
Homo sapiens |
| Characteristics |
time: 48 hours
cell type: DPSC
stress: normoxia
|
| Treatment protocol |
The hypoxic condition was generated by culturing cells in a chamber (In vivo2 400, Ruskinn Life Sciences, Pencoed, Bridgend, U.K., http://www.ruskinn.com) flushed with pre-mixed gas consisting of 1% O2, 5% CO2 and 94% N2 at 37ºC.
|
| Growth protocol |
Human dental pulp stem cells (DPSC) were cultured in low glucose-glucose Dulbecco´s modified Eagle´s medium (DMEM) supplemented with 10% fetal bovine serum and 1% penicillin-streptomycin
|
| Extracted molecule |
genomic DNA |
| Extraction protocol |
Cell line genomic DNA was purified by the ‘WizardR Genomic DNA Purification Kit’ (Promega)
|
| Label |
Cy3
|
| Label protocol |
Cyanine 3-dUTP and cyanine 5-dUTP were used for fluorescent labeling of digested gDNAs using the ‘Genomic DNA Enzymatic Labeling Kit’ Agilent p/n 5190-0449
|
| |
|
| Channel 2 |
| Source name |
H3
|
| Organism |
Homo sapiens |
| Characteristics |
stress: hypoxia
time: 48 hours
cell type: DPSC
|
| Treatment protocol |
The hypoxic condition was generated by culturing cells in a chamber (In vivo2 400, Ruskinn Life Sciences, Pencoed, Bridgend, U.K., http://www.ruskinn.com) flushed with pre-mixed gas consisting of 1% O2, 5% CO2 and 94% N2 at 37ºC.
|
| Growth protocol |
Human dental pulp stem cells (DPSC) were cultured in low glucose-glucose Dulbecco´s modified Eagle´s medium (DMEM) supplemented with 10% fetal bovine serum and 1% penicillin-streptomycin
|
| Extracted molecule |
genomic DNA |
| Extraction protocol |
Cell line genomic DNA was purified by the ‘WizardR Genomic DNA Purification Kit’ (Promega)
|
| Label |
Cy5
|
| Label protocol |
Cyanine 3-dUTP and cyanine 5-dUTP were used for fluorescent labeling of digested gDNAs using the ‘Genomic DNA Enzymatic Labeling Kit’ Agilent p/n 5190-0449
|
| |
|
| |
| Hybridization protocol |
hybridized with Human Genome CGH Microarray 44K (Agilent p/n G4426B-014950; http://www.genomics.agilent.com) containing 43,000+ coding and non-coding human sequences.
|
| Scan protocol |
scanned in an Agilent Microarray Scanner (Agilent G2565BA) according to the manufacturer’s protocol;
|
| Description |
48h hypoxic incubation vs normoxia dye swap
|
| Data processing |
data were extracted by Agilent Feature Extraction Software 10.7.1, following the Agilent protocol CGH_107_Sep09,grid template 014950_D_F_20090929 and the QC Metric Set CGH_QCMT_Sep09
|
| |
|
| Submission date |
Jul 01, 2010 |
| Last update date |
Jul 01, 2013 |
| Contact name |
Rut Lucas |
| E-mail(s) |
rlucas@cipf.es
|
| Organization name |
Centro Investigación Príncipe Felipe
|
| Street address |
Autopista Saler 16,
|
| City |
Valencia |
| ZIP/Postal code |
46012 |
| Country |
Spain |
| |
|
| Platform ID |
GPL5477 |
| Series (1) |
| GSE22673 |
Susceptibility of neoplastic transformation of human dental pulp stem cells DPSC in hypoxia |
|
