|
| Status |
Public on Aug 05, 2023 |
| Title |
D0 is070A rep3 [Day0_WT_is070_A_RHP7334] |
| Sample type |
SRA |
| |
|
| Source name |
donor-derived hiPSC
|
| Organism |
Homo sapiens |
| Characteristics |
time: D0
tissue: donor-derived hiPSC
cell line: is070 A
cell type: Undifferentiated pluripotent stem cells
genotype: WT
treatment: beta cell differentiation
|
| Extracted molecule |
total RNA |
| Extraction protocol |
RNA was harvested using MN NucleoSpin RNA Kit.
Libraries were prepared using the TruSEQ Stranded Total RNA Prep with Ribo-Zero Human Cat. No. RS-122-2201 as per manufacturer's protocol. Libraries sequenced using 150bp paired-end on HiSeq 4000 Platform.
|
| |
|
| Library strategy |
RNA-Seq |
| Library source |
transcriptomic |
| Library selection |
cDNA |
| Instrument model |
Illumina HiSeq 4000 |
| |
|
| Description |
Day0_WT_is070_A_RHP7334
|
| Data processing |
Paired-end FASTQ reads were aligned to human genome build GRCh38 using hisat2 with defaut parameters
SAM files were processed and sorted to BAM format using sambamba v 0.63
Transcript counts were generated with htseq-count (v0.5.4p3)
Assembly: GRCh38
Supplementary files format and content: tab-delimited text file that includes count for each sample
Supplementary files format and content: tab-delimited text file that includes TPM for each sample
|
| |
|
| Submission date |
May 18, 2022 |
| Last update date |
Aug 05, 2023 |
| Contact name |
Adrian Kee Keong Teo |
| E-mail(s) |
ateo@imcb.a-star.edu.sg
|
| Organization name |
IMCB, A*STAR
|
| Department |
Stem Cells and Diabetes Laboratory
|
| Street address |
61 Biopolis Drive, Proteos
|
| City |
Singapore |
| State/province |
Singapore |
| ZIP/Postal code |
138673 |
| Country |
Singapore |
| |
|
| Platform ID |
GPL20301 |
| Series (2) |
| GSE203264 |
PAX4 loss of function alters human endocrine cell development and influences diabetes risk [dataset 2] |
| GSE203265 |
PAX4 loss of function alters human endocrine cell development and influences diabetes risk. |
|
| Relations |
| BioSample |
SAMN28537889 |
| SRA |
SRX15325100 |
