|
| Status |
Public on Jan 28, 2021 |
| Title |
18855_2_C_methylation array |
| Sample type |
genomic |
| |
|
| Source name |
iPSC-derived cardiomyocytes_re-oxygenation1
|
| Organism |
Homo sapiens |
| Characteristics |
cell line: 18855
Sex: Female
population: Yoruba
cell type: induced pluripotent stem cell-derived cardiomyocytes
condition: re-oxygenation1
|
| Treatment protocol |
Four conditions were collected per individual: A- normoxia at 10% oxygen, B- hypoxia at 1% oxygen for 6 hours, C- 6 hours hypoxia and re-oxygenation at 10% oxygen for 6 hours and D- 6 hours hypoxia and re-oxygenation at 10% oxygen for 24 hours.
|
| Growth protocol |
iPSC-derived cardiomyocytes were maintained in Cardiomyocyte Maintenance Media [500 mL DMEM without glucose (A14430-01, ThermoFisher Scientific), 50 mL FBS (S1200-500, Genemate), 990 mg Galactose (G5388, Sigma-Aldrich), 5 mL 100 mM sodium pyruvate (11360-070, ThermoFisher Scientific), 2.5 mL 1M HEPES (SH3023701, ThermoFisher Scientific), 5 mL Glutamax (35050-061, ThermoFisher Scientific), 5 mL Penicillin/Streptomycin)].
|
| Extracted molecule |
genomic DNA |
| Extraction protocol |
DNA was extracted from ~1.5 million cells using the ZR-Duet DNA/RNA extraction kit (D7001, Zymo, Irvine, CA, USA).
|
| Label |
Cy3/Cy5
|
| Label protocol |
Standard Illumina protocols
|
| |
|
| Hybridization protocol |
DNA was bisulphite-converted and hybridised to an Illumina Infinium MethylationEPIC array at the University of Chicago Functional Genomics Facility
|
| Scan protocol |
Standard Illumina protocols
|
| Description |
YG.MW.plt1.G2
|
| Data processing |
Standard Illumina protocols
|
| |
|
| Submission date |
Jan 28, 2020 |
| Last update date |
Jan 28, 2021 |
| Contact name |
Nicholas Banovich |
| E-mail(s) |
[email protected]
|
| Phone |
602-343-8432
|
| Organization name |
Translational Genomics Research Institute
|
| Department |
Integrated Cancer genomics division
|
| Lab |
Banovich lab
|
| Street address |
445 N. Fifth Street
|
| City |
Phoenix |
| State/province |
AZ |
| ZIP/Postal code |
85004 |
| Country |
USA |
| |
|
| Platform ID |
GPL21145 |
| Series (2) |
| GSE144425 |
Effects of genetic variation on gene expression revealed following hypoxic stress in cardiomyocytes [methylation] |
| GSE144426 |
Effects of genetic variation on gene expression revealed following hypoxic stress in cardiomyocytes |
|
