|
| Status |
Public on Feb 13, 2020 |
| Title |
H9 naïve TSC Bulk RNA-seq |
| Sample type |
SRA |
| |
|
| Source name |
hTSC
|
| Organism |
Homo sapiens |
| Characteristics |
cell type: hTSC
iPSc source: --
passage: 10 to 20
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Total RNA was isolated using the E.Z.N.A. total RNA kit I.
Library construction was performed using the SMARTer Directional cDNA Library Construction Kit
|
| |
|
| Library strategy |
RNA-Seq |
| Library source |
transcriptomic |
| Library selection |
cDNA |
| Instrument model |
Illumina HiSeq 3000 |
| |
|
| Data processing |
Raw reads were trimmed with cutadapt to remove low quality bases
Trimmed reads were aligned to hg38 using STAR_2.5.4b with gencode v27 annotation
Aligned reads were quantified using featureCounts 1.6.3 from the subreads package
Genome_build: hg38
Supplementary_files_format_and_content: gene counts text file
|
| |
|
| Submission date |
Oct 10, 2019 |
| Last update date |
Feb 13, 2020 |
| Contact name |
Bo Zhang |
| E-mail(s) |
bzhang29@wustl.edu
|
| Phone |
3143624757
|
| Organization name |
Washington University School of Medicine
|
| Department |
Developmental Biology
|
| Lab |
Zhang
|
| Street address |
4515 McKinley Research Bldg 03212
|
| City |
Saint Louis |
| State/province |
Missouri |
| ZIP/Postal code |
63110 |
| Country |
USA |
| |
|
| Platform ID |
GPL21290 |
| Series (2) |
| GSE138688 |
Derivation of trophoblast stem cells from naïve human pluripotent stem cells [RNA-seq] |
| GSE138762 |
Derivation of trophoblast stem cells from naïve human pluripotent stem cells |
|
| Relations |
| BioSample |
SAMN13008852 |
| SRA |
SRX6975187 |
