 |
 |
GEO help: Mouse over screen elements for information. |
|
| Status |
Public on Oct 01, 2020 |
| Title |
I5061F_Fibroblast_P1 |
| Sample type |
SRA |
| |
|
| Source name |
Fibroblasts
|
| Organism |
Callithrix jacchus |
| Characteristics |
cell type: Fibroblasts
|
| Treatment protocol |
See the citation
|
| Growth protocol |
See the citation
|
| 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 |
HiSeq X Ten |
| |
|
| 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: Matrix table with raw gene counts for every gene and every sample
|
| |
|
| Submission date |
Jun 16, 2020 |
| Last update date |
Oct 02, 2020 |
| 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 |
GPL28659 |
| Series (2) |
| GSE152493 |
Non-viral Induction of Transgene-free iPSCs from Somatic Fibroblasts of Multiple Mammalian Species |
| GSE152545 |
Non-viral Induction of Transgene-free iPSCs from Somatic Fibroblasts of Multiple Mammalian Species [marmoset] |
|
| Relations |
| BioSample |
SAMN15246691 |
| SRA |
SRX8553371 |
| Supplementary file |
Size |
Download |
File type/resource |
| GSM4617903_I5061F_Fibroblast_P1.txt.gz |
2.4 Mb |
(ftp)(http) |
TXT |
SRA Run Selector |
| Raw data are available in SRA |
| Processed data are available on Series record |
| Processed data provided as supplementary file |
|
|
|
|
 |
