|
| Status |
Public on Apr 01, 2020 |
| Title |
DSY127_1 |
| Sample type |
SRA |
| |
|
| Source name |
marmoset ESC
|
| Organism |
Callithrix jacchus |
| Characteristics |
tissue: Primed ESC
|
| Extracted molecule |
polyA RNA |
| Extraction protocol |
Total RNA was extracted using an RNeasy Mini Kit.
Poly(A)+ RNA was selected and converted to a library of cDNA fragments (200–250 bp) with adaptors attached to both ends for sequencing using a TruSeq Stranded mRNA LT Sample Prep Kit Set [Illumina] as per the manufacturer’s instructions.
|
| |
|
| Library strategy |
RNA-Seq |
| Library source |
transcriptomic |
| Library selection |
cDNA |
| Instrument model |
Illumina HiSeq 2500 |
| |
|
| Data processing |
Poor-quality reads (score < 30) were trimmed using Trim Galore! (ver.0.4.0).
The resulting reads were aligned to the Callithrix jacchus genome (Callithrix_jacchus-3.2.1) using STAR aligner (version 2.5.3a).
The mapped reads were counted by featureCounts (1.5.2)
Genome_build: Callithrix jacchus-3.2
|
| |
|
| Submission date |
Oct 16, 2019 |
| Last update date |
Apr 01, 2020 |
| Contact name |
Seiji Shiozawa |
| Organization name |
Keio University, School of Medicine
|
| Street address |
35 Shinanomachi, Shinjuku-ku
|
| City |
Tokyo |
| ZIP/Postal code |
160-8582 |
| Country |
Japan |
| |
|
| Platform ID |
GPL21580 |
| Series (1) |
| GSE138944 |
Primed to naïve-like conversion of the common marmoset embryonic stem cells |
|
| Relations |
| BioSample |
SAMN13039584 |
| SRA |
SRX7005144 |
