|
| Status |
Public on Dec 15, 2022 |
| Title |
nH9 |
| Sample type |
genomic |
| |
|
| Source name |
Human embryonic stem cells
|
| Organism |
Homo sapiens |
| Characteristics |
cell type: Naive embryonic stem cells
gender: Female
growth protocol: on-feeder
|
| 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 medium. Feeder-free naive iPSCs were maintained on Matrigel (hESC-qualified, Corning)
|
| 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 7
Naive embryonic stem cells which were reset from the primed to naive state
|
| Data processing |
GenomeStudio V2011.1
|
| |
|
| Submission date |
Jul 05, 2021 |
| Last update date |
Dec 15, 2022 |
| 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) |
| GSE179473 |
DNA methylation profiles of human primed and naive pluripotent stem cells |
| GSE179476 |
Improved Sendai Viral System for Reprogramming to Naive Pluripotency |
|
