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 ID | Type of Data | Criteria | Release Date |
|---|---|---|---|
| JGAS000665 | NGS (scRNA-seq) | Controlled-access (Type I) | 2024/03/18 |
*Data users need to apply an application for Using NBDC Human Data to reach the Controlled-access Data. Learn more
MOLECULAR DATA
| 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):
| Name | Title | Project 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
| Title | DOI | Dataset 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 Investigator | Affiliation | Country/Region | Research Title | Data in Use (Dataset ID) | Period of Data Use |
|---|---|---|---|---|---|
