|
| Status |
Public on Nov 11, 2020 |
| Title |
FB_1008: d4RX1-KO_FB_2 |
| Sample type |
SRA |
| |
|
| Source name |
d4 differentiated RUNX1-/- SOX17mCHERRY/w H9 human embryonic stem cells
|
| Organism |
Homo sapiens |
| Characteristics |
cell population: Embryoid bodies
treatment: BMP4, VEGF, SCF, ACTIVIN A, FGF2, CHIR99012
culture medium: APEL cell culture medium
|
| Extracted molecule |
total RNA |
| Extraction protocol |
RNA libraries were prepared for sequencing using standard Illumina protocols
|
| |
|
| Library strategy |
RNA-Seq |
| Library source |
transcriptomic |
| Library selection |
cDNA |
| Instrument model |
Illumina HiSeq 2000 |
| |
|
| Data processing |
Illumina CASAVA pipeline version 1.8.2 used for basecalling
The raw reads were mapped to the human genome (hg39) using the STAR aligner version 2.5.2a in the two pass mapping mode
The mapped reads were quantified at the gene level using featureCounts version 1.4.6 using GENCODE Release 19 comprehensive annotation
Genome_build: hg39
Supplementary_files_format_and_content: tab delimited text file with Gene symbol and Gene length in the first two columns, followed by 24 columns containing counts for each sample
|
| |
|
| Submission date |
Dec 19, 2018 |
| Last update date |
Nov 11, 2020 |
| Contact name |
Freya Faith Bruveris |
| E-mail(s) |
freya.bruveris@mcri.edu.au
|
| Organization name |
Murdoch Children's Research Institute
|
| Department |
Cell Biology
|
| Lab |
Blood Development
|
| Street address |
50 Flemington Rd, Parkville
|
| City |
Melbourne |
| State/province |
VICTORIA |
| ZIP/Postal code |
3052 |
| Country |
Australia |
| |
|
| Platform ID |
GPL11154 |
| Series (2) |
| GSE124084 |
Human yolk sac-like haematopoiesis generates RUNX1-, GFI1- and/or GFI1B-dependent blood and SOX17-positive endothelium |
| GSE124086 |
Human yolk sac-like haematopoiesis generates RUNX1-, GFI1- and/or GFI1B-dependent blood and SOX17-positive endothelium |
|
| Relations |
| BioSample |
SAMN10614408 |
| SRA |
SRX5163316 |
