NBDC Research ID: hum0497.v1
SUMMARY
Aims: Establishing trophoblast stem cells from the human term placenta contributes to elucidating the pathophysiology of placenta-related pregnancy complications, such as preeclampsia, which commonly occur in late pregnancy.
Methods: RNA sequencing
Participants/Materials: Three trophoblast stem cell (Ch-TS) lines derived from the chorion of term placentas from three individuals, as well as differentiated extravillous trophoblast cells (Ch-EVT) and syncytiotrophoblast cells (Ch-ST). Additionally, three trophoblast stem cell lines obtained from RIKEN BRC (CT27, CT29, bTS5) and their differentiated extravillous trophoblast cells and syncytiotrophoblast cells.
| Dataset ID | Type of Data | Criteria | Release Date |
|---|---|---|---|
| JGAS000777 | NGS (RNA-seq) | Controlled-access (Type I) | 2025/08/06 |
*Data users need to apply an application for Using NBDC Human Data to reach the Controlled-access Data. Learn more
MOLECULAR DATA
| Participants/Materials |
human term placentas from three individuals (ICD10: O82.0, O80.0) trophoblast stem cell (Ch-TS) lines derived from the chorion: 3 samples differentiated extravillous trophoblast cells (Ch-EVT): 3 samples differentiated syncytiotrophoblast cells (Ch-ST): 3 samples human trophoblast stem cell lines from RIKEN BRC (CT27, CT29, bTS5) trophoblast stem cells: 3 samples differentiated extravillous trophoblast cells: 2 samples differentiated syncytiotrophoblast cells: 2 samples |
| Targets | RNA-seq |
| Target Loci for Capture Methods | - |
| Platform | Illumina [NovaSeq 6000] |
| Library Source | total RNA extracted from trophoblast stem cells, extravillous trophoblast cells and syncytiotrophoblast cells |
| Cell Lines | RIKEN BRC (CT27 [RCB4936], CT29 [RCB4937], bTS5 [RCB4940]) |
| Library Construction (kit name) | NEBNext Poly(A) mRNA Magnetic Isolation Module, NEBNext Ultra II Directional RNA Library Prep Kit, NEBNext Multiplex Oligos for Illumina (96 Unique Dual Index Primer Pairs) |
| Fragmentation Methods | chemical fragmentation at 94℃ |
| Spot Type | Paired-end |
| Read Length (without Barcodes, Adaptors, Primers, and Linkers) | 100 bp |
| Mapping Methods | HISAT2 |
| Mapping Quality | Mapping rate>98% |
| Reference Sequence | GRCh38/hg38 |
| Analysis Methods | featureCounts (GRCh38.106) |
| Japanese Genotype-phenotype Archive Dataset ID | JGAD000919 |
| Total Data Volume | 68.3 GB (fastq, csv) |
| Comments (Policies) | NBDC policy |
DATA PROVIDER
Principal Investigator: Masatsugu Ema
Affiliation: Department of Stem Cells and Human Disease Models, Research Center for Animal Life Science, Shiga University of Medical Science
Project / Group Name: -
Funds / Grants (Research Project Number):
| Name | Title | Project Number |
|---|---|---|
| KAKENHI Grant-in-Aid for Scientific Research (C) | Establishment of trophoblast stem cells derived from patients with hypertensive disorders of pregnancy | 22K09639 |
| KAKENHI Grant-in-Aid for Challenging Research (Pioneering) | Elucidation of implantation and placental development mechanisms in non-human primates and their application to human biology | 24K21265 |
| KAKENHI Grant-in-Aid for Scientific Research on Innovative Areas (Research in a proposed research area) | Inner cell mass dynamism and totipotency in primate | 22H04669 |
| KAKENHI Grant-in-Aid for Scientific Research on Innovative Areas (Research in a proposed research area) | Origin of placental tissues in cynomolgus monkey | 20H05359 |
| The Seiichi Imai Memorial Foundation | Generation of Trophoblast Stem Cell from Preeclampsia | - |
PUBLICATIONS
| Title | DOI | Dataset ID | |
|---|---|---|---|
| 1 | Establishment of Human Trophoblast Stem Cells from Term Smooth Chorion | doi: 10.1016/j.placenta.2025.07.090 | JGAD000919 |
| 2 |
USRES (Controlled-access Data)
| Principal Investigator | Affiliation | Country/Region | Research Title | Data in Use (Dataset ID) | Period of Data Use |
|---|---|---|---|---|---|
