|
| Status |
Public on May 01, 2024 |
| Title |
OSKL_day5 (scRNA-seq) |
| Sample type |
SRA |
| |
|
| Source name |
Human dermal fibroblasts sampled at day5 after infection with SeV-OSKL
|
| Organism |
Homo sapiens |
| Characteristics |
cell type: Human dermal fibroblasts
gender: Female
|
| Growth protocol |
HDFs were maintained in fibroblast medium, and Primed PSCs were maintained in StemFit AK02N medium (Ajinomoto) on laminin 511-E8 fragments (iMatrix-511, Nippi)-coated plates.
|
| Extracted molecule |
total RNA |
| Extraction protocol |
mRNA was extracted according to the manufacturer's protocol.
RNA libraries were prepared according to the manufacturer’s protocol using the 10x Genomics Chromium Next GEM Single Cell 3’ Kit v3 and Single Index Kit.
|
| |
|
| Library strategy |
RNA-Seq |
| Library source |
transcriptomic single cell |
| Library selection |
cDNA |
| Instrument model |
Illumina HiSeq 2500 |
| |
|
| Description |
Human dermal fibroblasts sampled at day5 after infection with SeV-OSKL
|
| Data processing |
Raw sequencing data was converted to the standard FASTQ files by executing cellranger mkfastq (3.1.1, 10x Genomics)
Gene counts of each sample were generated by executing cellranger count (3.1.1, 10x Genomics) with refdata-cellranger-GRCh38-3.0.0 as the reference dataset.
Assembly: GRCh38
Supplementary files format and content: Tab-delimited text files include FPKM values for each sample.
|
| |
|
| 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 |
GPL16791 |
| Series (2) |
| GSE224700 |
Single cell RNA-seq analysis of human dermal fibroblasts and human pluripotent stem cells |
| GSE224850 |
H1FOO-DD promotes efficiency and uniformity in reprogramming to naive pluripotency |
|
| Relations |
| BioSample |
SAMN33185218 |
| SRA |
SRX19301631 |
