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| Status |
Public on Oct 17, 2016 |
| Title |
EN_39_d10.5 |
| Sample type |
SRA |
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| Source name |
day 10 differentiated SOX17 mCHERRY/w RUNX1C GFP/w H9 human embryonic stem cells
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| Organism |
Homo sapiens |
| Characteristics |
cell population: CH-43+
treatment: BMP4, VEGF,SCF,ACTIVIN A, FGF (BVSAF)
culture medium: APEL cell culture medium
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| Extracted molecule |
total RNA |
| Extraction protocol |
RNA libraries were prepared for sequencing using standard Illumina protocols
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| Library strategy |
RNA-Seq |
| Library source |
transcriptomic |
| Library selection |
cDNA |
| Instrument model |
Illumina HiSeq 2000 |
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| Description |
RawCountsCellPops.txt
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| Data processing |
Illumina CASAVA pipeline version 1.8.2 used for basecalling.
The raw reads were mapped to the human genome (hg19) using the STAR aligner version 2.4.0h1 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: hg19
Supplementary_files_format_and_content: tab delimited text file with Gene symbol and Gene length in the first two columns, followed by 26 columns containing counts for each sample
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| Submission date |
May 03, 2016 |
| Last update date |
May 15, 2019 |
| Contact name |
Belinda Phipson |
| Organization name |
WEHI
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| Department |
Bioinformatics
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| Lab |
Phipson
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| Street address |
1G Royal Parade
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| City |
Parkville |
| State/province |
VIC |
| ZIP/Postal code |
3052 |
| Country |
Australia |
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| Platform ID |
GPL11154 |
| Series (2) |
| GSE81074 |
Differentiation of human embryonic stem cells to HOXA+ hemogenic vasculature that resembles the aorta-gonad-mesonephros |
| GSE81102 |
Differentiation of human embryonic stem cells to HOXA+ hemogenic vasculature that resembles the aorta-gonad-mesonephros |
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| Relations |
| BioSample |
SAMN04939076 |
| SRA |
SRX1740252 |
| Supplementary data files not provided |
SRA Run Selector |
| Raw data are available in SRA |
| Processed data are available on Series record |
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