|
| Status |
Public on Jan 01, 2022 |
| Title |
No40_eps_1 |
| Sample type |
SRA |
| |
|
| Source name |
Extended pluripotent stem cell
|
| Organism |
Callithrix jacchus |
| Characteristics |
cell type: Extended pluripotent stem cell
|
| Extracted molecule |
total RNA |
| Extraction protocol |
RNeasy Mini Kit (Qiagen)
RNA libraries were prepared for sequencing using standard Illumina protocols
|
| |
|
| Library strategy |
RNA-Seq |
| Library source |
transcriptomic |
| Library selection |
cDNA |
| Instrument model |
Illumina HiSeq 4000 |
| |
|
| Data processing |
Data of RNA-seq (fastq file format) were quality-checked, and low-quality reads (score < 30), adapter sequences, and overrepresented sequences such as poly-A chain were trimmed using the Trim Galore! (ver.0.4.0).
The remaining reads were mapped to the Callithrix jacchus genome (cj3.2.1.86) using the STAR (ver.2.5.3a), and the output file (BAM file format) were summarized using the featureCounts (1.5.2).
Genome_build: cj3.2.1.86
Supplementary_files_format_and_content: raw counts
|
| |
|
| Submission date |
Nov 26, 2021 |
| Last update date |
Jan 02, 2022 |
| Contact name |
Sho Yoshimatsu |
| E-mail(s) |
yoshima@a7.keio.jp
|
| Organization name |
Keio University School of Medicine
|
| Department |
Physiology
|
| Lab |
Hideyuki Okano's Lab
|
| Street address |
35 Shinanomachi
|
| City |
Shinjuku |
| State/province |
Tokyo |
| ZIP/Postal code |
160-8582 |
| Country |
Japan |
| |
|
| Platform ID |
GPL26566 |
| Series (1) |
| GSE189633 |
Attempts for deriving extended pluripotent stem cells from common marmoset embryonic stem cells |
|
| Relations |
| BioSample |
SAMN23457750 |
| SRA |
SRX13237809 |
