|
| Status |
Public on Jun 19, 2019 |
| Title |
17_Day28_2 |
| Sample type |
SRA |
| |
|
| Source name |
Kidney organoid derived from MAFB-P2A-eGFP H9 hESC, collected on differentiation day 28, batch 2
|
| Organism |
Homo sapiens |
| Characteristics |
cell line source: H9
source cell type: human embryonic stem cells
differentiation day: Day 28
cell line of origin: H9 human embryonic stem cell
genotype/variation: MAFB-P2A-eGFP
|
| Treatment protocol |
NA
|
| Growth protocol |
Kidney differentiation followed protocol described in Morizane et al., 2016
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Ambion Recoverall Total Nucleic Acid Isolation Kit and QIAGEN Rneasy Micro Kit; Qiagen Rneasy micro kit
Kapa stranded mRNA-Seq library (#KK8420)
|
| |
|
| Library strategy |
RNA-Seq |
| Library source |
transcriptomic |
| Library selection |
cDNA |
| Instrument model |
Illumina NextSeq 500 |
| |
|
| Description |
processed data file:
TPM-table_progression_org_differentiation_all-reps.txt
|
| Data processing |
Fastq files were aligned to hg38 with TopHat2
Gene-level quantification was performed with Partek E/M through Partek Genomic Suite
Gene-level read couns was normalized to TPM through Partek Genomic Suite
Genome_build: hg38
Supplementary_files_format_and_content: TPM
|
| |
|
| Submission date |
Dec 26, 2018 |
| Last update date |
Jun 19, 2019 |
| Contact name |
Andrew P McMahon |
| E-mail(s) |
amcmahon@med.usc.edu
|
| Phone |
323-442-7847
|
| Organization name |
University of Southern California
|
| Department |
Stem Cell Biol & Regen Med
|
| Lab |
Andrew McMahon
|
| Street address |
1425 San Pablo St, BCC 312
|
| City |
Los Angeles |
| State/province |
California |
| ZIP/Postal code |
90033 |
| Country |
USA |
| |
|
| Platform ID |
GPL18573 |
| Series (1) |
| GSE124392 |
In vivo developmental trajectories of human podocyte development inform in vitro differentiation of pluripotent stem-cell derived podocytes |
|
| Relations |
| BioSample |
SAMN10645026 |
| SRA |
SRX5180679 |
