|
| Status |
Public on May 01, 2024 |
| Title |
Naive H9 ESC (Methylation) |
| Sample type |
genomic |
| |
|
| Source name |
Naive embryonic stem cells which were reset from the primed to naive state
|
| Organism |
Homo sapiens |
| Characteristics |
cell type: Human embryonic stem cells
gender: Female
|
| Growth protocol |
Primed PSCs were maintained in StemFit AK02N medium (Ajinomoto) on laminin 511-E8 fragments (iMatrix-511, Nippi)-coated plates. Naive PSCs were cultured on iMEFs and maintained in t2iLGö+Y medium.
|
| Extracted molecule |
genomic DNA |
| Extraction protocol |
Genomic DNA were extracted from cell lysates using the AllPrep DNA/RNA Mini Kit (QIAGEN)
|
| Label |
Cy5 and Cy3
|
| Label protocol |
Standard Illumina Protocol
|
| |
|
| Hybridization protocol |
The bisulfite conversion of 500 ng genomic DNA was performed using the EZ DNA Methylation Kit (Zymo Research), and the bisulfite converted DNA was amplified, fragmented and hybridised to Illumina Infinium Human Methylation 450K or EPIC BeadChip Kit using standard Illumina protocol
|
| Scan protocol |
Using illumina iScan according to recommended scanner setting
|
| Description |
SAMPLE 20
Naive embryonic stem cells which were reset from the primed to naive state
|
| Data processing |
GenomeStudio V2011.1
|
| |
|
| Submission date |
Feb 07, 2023 |
| Last update date |
May 01, 2024 |
| Contact name |
Akira Kunitomi |
| E-mail(s) |
akira.kunitomi@gladstone.ucsf.edu
|
| Organization name |
The J. David Gladstone Institutes
|
| Street address |
1650 Owens Street
|
| City |
San Francisco |
| State/province |
CA |
| ZIP/Postal code |
94158 |
| Country |
USA |
| |
|
| Platform ID |
GPL13534 |
| Series (2) |
| GSE224697 |
DNA methylation analysis of human primed and naive pluripotent stem cells |
| GSE224850 |
H1FOO-DD promotes efficiency and uniformity in reprogramming to naive pluripotency |
|
