|
| Status |
Public on Oct 04, 2019 |
| Title |
hiPSC, biological replicate-1 |
| Sample type |
RNA |
| |
|
| Source name |
human induced pluripotent stem cells
|
| Organism |
Homo sapiens |
| Characteristics |
cell line: hiPSC line GM25256*B
cell type: induced pluripotent stem cells
differentiation stage: Initial
|
| Treatment protocol |
None
|
| Growth protocol |
The hiPSC line GM25256*B was induced to differentiate into human Leydig cell-like cells (hLLCs) and human adrenal cell-like cells (hALCs), respectively.
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Total RNA samples were prepared using Ambion® RiboPure™ Kit (Thermofisher Scientific, AM1924), according to the manufacture's instructions.
|
| Label |
biotin
|
| Label protocol |
After validation of the RNA quality with Bioanalyzer 2100, The standard Affymetrix WT plus protocol was used to generate cDNA from 250 ng total RNA. First and second strand cRNA synthesis was according to the manufacturer’s instructions. ss-cDNA synthesis was followed by 15ug of cRNA in vitro transcription and a second round of ss-cDNA synthesis according to the manufacturer’s instructions. Fragmentation of 5.5ug of single-stranded cDNA was performed using the Affymetrix GeneChip WT Terminal Labeling and Hybridization protocol per the manufacturer's instructions Reagent Kit (Affymetrix).
|
| |
|
| Hybridization protocol |
Following fragmentation and Labeling samples were hybridized for at 60 RPM for 16 hrs at 45C on Clariom™ S Assay, human array. GeneChips were washed and stained in the Affymetrix Fluidics Station 400.
|
| Scan protocol |
GeneChips were scanned using the Affymetrix GeneChip Scanner 3000 4G.
|
| Description |
Gene expression data from hiPSCs
|
| Data processing |
The data were preprocessed and analyzing using Partek Genomic Suite.
Probe level data were summarized using the RMA. Background are adjusted using RMA background correction. Quantile normalization was used to correct for array bias. All probe level intensities were log 2 transformed. Probesets were summarized using median polish.
|
| |
|
| Submission date |
Mar 06, 2019 |
| Last update date |
Oct 04, 2019 |
| Contact name |
Lu Li |
| E-mail(s) |
greenpearll0804@gmail.com
|
| Phone |
323-442-0277
|
| Organization name |
University of Southern California
|
| Department |
School of Pharmacy
|
| Street address |
Room 706, 1985 Zonal Ave
|
| City |
Los Angeles |
| State/province |
CA |
| ZIP/Postal code |
90089 |
| Country |
USA |
| |
|
| Platform ID |
GPL23159 |
| Series (1) |
| GSE127915 |
Transcriptome Profiling for human Leydig cell-like cells, adrenal cell-like cells, and induced pluripotent stem cells |
|
