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| Status |
Public on Sep 01, 2021 |
| Title |
V_C_D5_1 |
| Sample type |
SRA |
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| Source name |
cardiac progenitor cells
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| Organism |
Homo sapiens |
| Characteristics |
cell type: ES-derived cardiac progenitor cells
passages: 8-13
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| Treatment protocol |
For cardiomyocyte differentiation, cells were induced using a chemically defined medium consisting of three components (CDM3): the basal medium RPMI 1640 (C14065500, Gibco), L-ascorbic acid 2-phosphate (213µg/ml,113170-55-1,Sigma) and Oryza sativa-derived recombinant human albumin (500µg/m,HY100M1,Healthgen Biotechnology Corp). In brief, single cell suspensions were prepared using Accutase and were seeded in 12-well Matrigel-coated plate at a density of 4×105 cells/well. When cells reached 80%-90% confluence (Day 0), cells were fed daily by 2ml CDM3 basal medium supplemented with CHIR99021 (6μM, 72052, Stem cell). 48 hours later (Day 2), medium was replaced with 2ml CDM3 supplemented with Wnt-C59 (2μM, 1248913, Peprotech Biogems). After 96 houres(day 4) , the medium was replaced with CDM3 basal medium (every other day) without any medium change until the appearance of cell beating.
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| Growth protocol |
Undifferentiated H1 hESC lines were maintained in a feeder-free culture system. Briefly, we precoated the well plates with Matrigel (354277, BD Biosciences), and then seeded and cultured cells with TeSR™-E8™ medium (05840,Stemcell). When cells reached 80% confluence, they were passaged routinely with Accutase (07920, Stemcell).
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| Extracted molecule |
total RNA |
| Extraction protocol |
Total RNA was extracted from D0, D2, , D3, D5 and D10 cells using Trizol reagent (15596018,Thermo Fisher Scientific). Reverse transcription was accomplished with Reverse Transcription Kit (RR037A,Takara) according to the manufacturer's instructions.
RNA libraries were prepared for sequencing using standard Illumina protocols
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| Library strategy |
RNA-Seq |
| Library source |
transcriptomic |
| Library selection |
cDNA |
| Instrument model |
Illumina NovaSeq 6000 |
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| Data processing |
clean data were mapped to human reference genome hg19 by STAR_2.5.0a
HTSeq count was used for FPKM estimation
Differential expressed genes were identified by DESeq2
Genome_build: hg19
Supplementary_files_format_and_content: .txt file including fpkm
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| Submission date |
Sep 09, 2019 |
| Last update date |
Sep 01, 2021 |
| Contact name |
Fei Liang |
| E-mail(s) |
min_z@outlook.com
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| Organization name |
Shanghai Jiao Tong University School of Medicine
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| Department |
Shanghai Children's Medical Center
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| Lab |
Zhen Zhang
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| Street address |
1678 Dong Fang Road
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| City |
Shanghai |
| State/province |
Shanghai |
| ZIP/Postal code |
200127 |
| Country |
China |
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| Platform ID |
GPL24676 |
| Series (1) |
| GSE137090 |
RNA-Sequencing analysis of control and SORBS2 knockdown cardiac progenitor cells derived from human stem cells in vitro |
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| Relations |
| BioSample |
SAMN12715035 |
| SRA |
SRX6818045 |
| Supplementary file |
Size |
Download |
File type/resource |
| GSM4066692_V_C_D5_1.fpkm.txt.gz |
284.7 Kb |
(ftp)(http) |
TXT |
SRA Run Selector |
| Raw data are available in SRA |
| Processed data provided as supplementary file |
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