|
| Status |
Public on Mar 17, 2023 |
| Title |
ag49+52VT (E15.5)_MS245_B08 |
| Sample type |
SRA |
| |
|
| Source name |
15XRi-AGVT#7
|
| Organism |
Macaca fascicularis |
| Characteristics |
cell line: 15XRi-AGVT#7
cell type: Early oogonia
tag: TFAP2C-EGFP, DDX4-tdTomato
genotype: wildtype
treatment: aggregate culture with mouse ovarian somatic cells at E15.5
|
| Extracted molecule |
polyA RNA |
| Extraction protocol |
Single-cell library was prepared using the 10X Genomics Chromium Next GEM Single Cell 3’ Reagent Kits v3.1 (10X Genomics) according to the manufacturer’s instructions. Briefly, xrOvary at ag49+52 was trypsinized and applied to flow cytometry (BD, FACS Aria III). CyESC-derived germ cells were collected as FSC-W high/DRAQ7-negative/AG and/or VT-positive cells, on the other hand, mouse gonadal somatic cells were obtained as FSC-W low/DRAQ7-negative/AG-VT- population. Cy germ cells and mouse cells were mixed and the cell concentration was adjusted to 1000 cells/µL and applied to Chromium 10X Single Cell System (10X Genomics) to generate the Gel-Bead in Emulsions (GEMs). cDNA libraries were prepared using Chromium Next GEM Single Cell 3’ GEM, Library & Gel Bead Kit v3.1 (10X Genomics) following the manufacturer’s instructions.
|
| |
|
| Library strategy |
RNA-Seq |
| Library source |
transcriptomic single cell |
| Library selection |
cDNA |
| Instrument model |
Illumina NovaSeq 6000 |
| |
|
| Data processing |
Read data were processed with 'cellranger mkfastq' and 'cellranger count' with default setting and transcript reference, macFass5 Annotation Release 101.
Assembly: macFas5.0
Supplementary files format and content: tab-delimited text files include FPKM for each Sample
Supplementary files format and content: Cell Ranger output, h5 files
|
| |
|
| Submission date |
Oct 20, 2022 |
| Last update date |
Mar 17, 2023 |
| Contact name |
Yukihiro Yabuta |
| E-mail(s) |
yabyab@anat2.med.kyoto-u.ac.jp
|
| Organization name |
Kyoto University, Graduate school of medicine
|
| Department |
Anatomy and Cell Biology
|
| Street address |
Yoshida-Konoe-cho, Sakyo-ku
|
| City |
Kyoto |
| State/province |
Kyoto |
| ZIP/Postal code |
606-8501 |
| Country |
Japan |
| |
|
| Platform ID |
GPL28212 |
| Series (2) |
| GSE216201 |
Induction of fetal meiotic oocytes from embryonic stem cells in cynomolgus monkeys (scRNA-Seq) |
| GSE216206 |
Induction of fetal meiotic oocytes from embryonic stem cells in cynomolgus monkeys |
|
| Relations |
| BioSample |
SAMN31388627 |
| SRA |
SRX17968235 |
