|
Status |
Public on Jan 30, 2023 |
Title |
KiPS_PRIMED_Rep_1 |
Sample type |
SRA |
|
|
Source name |
KiPS primed-iPSCs
|
Organism |
Homo sapiens |
Characteristics |
cell type: primed induced pluripotent stem cells
|
Treatment protocol |
None
|
Growth protocol |
Cells were cultured in Feeder-free on pre-coated plates with 0.5% growth factor-reduced Matrigel (CORNING 356231) (in PBS with MgCl2/CaCl2, Sigma-Aldrich D8662) in E8 medium (made in-house according to12) at 37°C, 5% CO2, 5% O2. Cells were passaged every 3-4 days at a split ratio of 1:8 following dissociation with 0.5 mM EDTA (Invitrogen AM99260G) in PBS without MgCl2/CaCl2 (Sigma-Aldrich D8662), pH8.
|
Extracted molecule |
total RNA |
Extraction protocol |
Total RNA was isolated using Total RNA Purification kit (Norgen Biotek), according to manufactorer's protocol. Quant Seq 3' mRNA-seq Library Prep kit (Lexogen) is used for library construction.
|
|
|
Library strategy |
RNA-Seq |
Library source |
transcriptomic |
Library selection |
cDNA |
Instrument model |
Illumina NextSeq 500 |
|
|
Data processing |
trimming was performed using BBDuk from BBTools v38.87 alignment was performed with STAR 2.7.6a quantification was performed with featureCounts 2.0.1 Genome_build: Human GRCh38.p13 Ensembl release 100 Supplementary_files_format_and_content: raw_counts_matrix.txt is a TSV containing EnsemblID, official gene symbols and raw counts for each condition
|
|
|
Submission date |
Sep 21, 2021 |
Last update date |
Jan 30, 2023 |
Contact name |
Graziano Martello |
E-mail(s) |
graziano.martello@unipd.it
|
Organization name |
University of Padua
|
Department |
Department of Molecular Medicine
|
Street address |
viale Colombo 3
|
City |
Padua |
ZIP/Postal code |
35121 |
Country |
Italy |
|
|
Platform ID |
GPL18573 |
Series (1) |
GSE184562 |
Chemical conversion of human conventional Pluripotent Stem Cells to Trophoblast Stem Cells following transient naive genes activation. |
|
Relations |
BioSample |
SAMN21542108 |
SRA |
SRX12287133 |