|
| Status |
Public on Oct 31, 2018 |
| Title |
C32_D0_3_S3 |
| Sample type |
SRA |
| |
|
| Source name |
Day 0 hiPSCs
|
| Organism |
Homo sapiens |
| Characteristics |
clone: human iPSC line CRL1502 (clone C32)
media: MEF-conditioned human ES cell medium
day: 0
Stage: undifferentiated
|
| Growth protocol |
Human iPSCs were cultured in a differentiation medium (8 uM CHIR99021 in APEL medium) for 4 days.
|
| Extracted molecule |
total RNA |
| Extraction protocol |
RNA were extracted using QIAGEN RNeasy micro kit.
RNA libraries were prepared for sequencing using standard Illumina protocols
|
| |
|
| Library strategy |
RNA-Seq |
| Library source |
transcriptomic |
| Library selection |
cDNA |
| Instrument model |
Illumina NextSeq 500 |
| |
|
| Description |
Undifferentiated stage
RawCounts.txt
|
| Data processing |
Fastq files were generated using the bcl to fastQ converter 2.17.
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 6 columns containing counts for each sample
|
| |
|
| Submission date |
Oct 19, 2016 |
| Last update date |
May 15, 2019 |
| Contact name |
Belinda Phipson |
| Organization name |
WEHI
|
| Department |
Bioinformatics
|
| Lab |
Phipson
|
| Street address |
1G Royal Parade
|
| City |
Parkville |
| State/province |
VIC |
| ZIP/Postal code |
3052 |
| Country |
Australia |
| |
|
| Platform ID |
GPL18573 |
| Series (1) |
| GSE88942 |
RNA-Seq from early time points in the kidney differentiation protocol |
|
| Relations |
| BioSample |
SAMN05925098 |
| SRA |
SRX2252435 |
