NBDC Research ID: hum0435.v1

 

SUMMARY

Aims: Regenerative medicine for heart failure is expected to restore cardiac function by using human iPS cells (hiPSCs). In our laboratory, it was shown that transplantation of cardiomyocytes (CMs) derived from hiPSCs into a pig model of myocardial infarction improves the disease condition. However, the instability of differentiation efficiency and tumorigenicity after transplantation are still issues to be resolved. We attempt to identify and analyze the genes and DNA methylation associated with the induction of differentiation of hiPSCs into CMs to achieve stable induction of CMs differentiation. Furthermore, we aim to analyze genes involved in tumorigenesis in CMs, and to develop a predictive marker for tumorigenesis to ensure the safety of cells before transplantation.

Methods: Cardiomyocytes were induced from human iPS cells and gene expression was analyzed by single cell RNA-seq.

Participants/Materials: Cardiomyocytes differentiated from human iPS cells established from peripheral blood cells of a healthy donor

 

Dataset IDType of DataCriteriaRelease Date
JGAS000665 NGS (scRNA-seq) Controlled-access (Type I) 2024/03/18

*Release Note  

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MOLECULAR DATA

JGAS000665

Participants/Materials Cardiomyocytes differentiated from human iPS cells established from healthy donor cells: 1 sample
Targets scRNA-seq
Target Loci for Capture Methods -
Platform Illumina [HiSeq 3000]
Library Source RNAs extracted from cardiomyocytes differentiated from human iPS cells
Cell Lines -
Library Construction (kit name) Nextera XT DNA sample preparation Kit
Fragmentation Methods Nextera XT DNA sample preparation Kit
Spot Type Single-end
Read Length (without Barcodes, Adaptors, Primers, and Linkers) 100 bp
Mapping Methods STAR (mappa/hanta pipeline)
Reference Genome Sequence hg38
Detecting method for read count (software) Subread (mappa/hanta pipeline)
QC Methods Cutadapt (mappa/hanta pipeline)
Gene Number 58736 genes
Japanese Genotype-phenotype Archive Dataset ID JGAD000795
Total Data Volume 5.7 GB (fastq, txt)
Comments (Policies) NBDC policy

 

DATA PROVIDER

Principal Investigator: Shigeru Miyagawa

Affiliation: Department of Cardiovascular Surgery, Osaka University Graduate School of Medicine

Project / Group Name: -

Funds / Grants (Research Project Number):

NameTitleProject Number
Research Center Network for Realization of Regenerative Medicine, Japan Agency for Medical Research and Development (AMED) Center for the development of myocardial regenerative treatments using iPS cells JP20bm0204003

 

PUBLICATIONS

TitleDOIDataset ID
1 Pre-clinical evaluation of the efficacy and safety of human induced pluripotent stem cell-derived cardiomyocyte patch doi: 10.1186/s13287-024-03690-8 JGAD000795
2

 

USRES (Controlled-access Data)

Principal InvestigatorAffiliationCountry/RegionResearch TitleData in Use (Dataset ID)Period of Data Use