NBDC Research ID: hum0206.v1
SUMMARY
Aims: A complete hydatidiform mole (CHM) is an abnormal pregnancy caused by genetic fertilization disorders. The aim of this study is to establish human trophoblast stem (TS) cell lines from CHMs and elucidate their pathogenesis.
Methods: Transcriptome analysis (RNA-seq) , Methyloation analysis (PBAT-seq)
Participants/Materials: Cytotrophoblast (CT) cells isolated from placenta tissues of CHMs and CHM-derived TS cells
| Dataset ID | Type of Data | Criteria | Release Date |
|---|---|---|---|
| JGAS000207 | NGS (PBAT-seq, RNA-seq) | Controlled-access (Type I) | 2019/11/26 |
*Data users need to apply an application for Using NBDC Human Data to reach the Controlled-access Data. Learn more
MOLECULAR DATA
| Participants/Materials: |
CHM (ICD10: O01): 3 cases TS cells: 3 samples |
| Targets | PBAT-seq |
| Target Loci for Capture Methods | - |
| Platform | Illumina [HiSeq 1500/2500] |
| Library Source | DNAs extracted from CHM-derived TS cells |
| Cell Lines | - |
| Library Construction (kit name) | Post-Bisulfite Adaptor-Tagging (PBAT) |
| Fragmentation Methods | PBAT method: fragmentation due to bisulfite conversion |
| Spot Type | Single-end |
| Read Length (without Barcodes, Adaptors, Primers, and Linkers) | 101 bp |
| Japanese Genotype-phenotype Archive Dataset ID | JGAD000292 |
| Total Data Volume | 203 GB (fastq) |
| Comments (Policies) | NBDC policy |
| Participants/Materials: |
CHM (ICD10: O01): 3 cases CT cells: 2 samples TS cells: 3 samples |
| Targets | RNA-seq |
| Target Loci for Capture Methods | - |
| Platform | Illumina [HiSeq 2500] |
| Library Source | mRNAs extracted from CT cells isolated from placenta tissues of CHMs and CHM-derived TS cells |
| Cell Lines | - |
| Library Construction (kit name) | TruSeq Stranded mRNA LT Sample Prep Kit |
| Fragmentation Methods | Heat treatment |
| Spot Type | Paired-end |
| Read Length (without Barcodes, Adaptors, Primers, and Linkers) | 101 bp |
| Japanese Genotype-phenotype Archive Dataset ID | JGAD000292 |
| Total Data Volume | 203 GB (fastq) |
| Comments (Policies) | NBDC policy |
DATA PROVIDER
Principal Investigator: Takahiro Arima
Affiliation: Department of Informative Genetics, Tohoku University Graduate School of Medicine
Project / Group Name: -
Funds / Grants (Research Project Number):
| Name | Title | Project Number |
|---|---|---|
| Core Research and Evolutional Science and Technology, Advanced Research & Development Programs for Medical Innovation, Japan Agency for Medical Research and Development (AMED-CREST) | Elucidation of the mechanisms underlying human placental development and design of a placenta-on-a-chip platform | JP19gm1310001 |
| Core Research and Evolutional Science and Technology, Advanced Research & Development Programs for Medical Innovation, Japan Agency for Medical Research and Development (AMED-CREST) | Epigenome analysis of cells in the placenta and endometrium forming the fetal-maternal interface | JP17gm0510011 |
PUBLICATIONS
| Title | DOI | Dataset ID | |
|---|---|---|---|
| 1 | Loss of p57KIP2 expression confers resistance to contact inhibition in human androgenetic trophoblast stem cells | doi: 10.1073/pnas.1916019116 | JGAD000292 |
| 2 |
USERS (Controlled-access Data)
| Principal Investigator | Affiliation | Country/Region | Research Title | Data in Use (Dataset ID) | Period of Data Use |
|---|---|---|---|---|---|
| Michiaki Hamada | Faculty of Science and Engineering, Waseda University | Japan | Construction of RNA-targeted Drug Discovery Database | JGAD000292 | 2022/12/26-2025/03/31 |
