Skip to content
NBDC Human Database

No datasets in the cart.

Go to the cart

Due to system maintenance, the application system, application review by the Data Access Committee will be unavailable during the following period.
Schedule: October 5th (Mon), 2026, 9:00 - October 7th (Wed), 2026, 15:00 (JST)
We apologize for any inconvenience this may cause and appreciate your understanding.

We are currently receiving a large number of applications for data submission, and the review process is taking longer than usual.We sincerely apologize for the delay and kindly ask for your understanding. When submitting an application, we would greatly appreciate it if you could allow sufficient time for the processing.

Following a change to our organizational structure effective April 1, 2026, this division has been renamed from the "Database Center for Life Science, Joint Support-Center for Data Science Research" to the "Database Division for Life Science (DBCLS), BioData Science Initiative (BSI), National Institute of Genetics (NIG)". Where the former name still appears in the guidelines, please read it as the new name.

Research ID

hum0358-v4Release info

Latest

Research title

Research of genetic abnormalities related to the development and prognosis of adenocarcinoma and squamous cell carcinoma of the cervix and vaginal and vulvar cancer

Research overview

Aims
To identify molecular markers involved in the development and prognosis of cervical adenocarcinoma, we would like to elucidate the molecular biological characteristics of cervical adenocarcinoma in relation to the carcinogenesis of other cervical cancers (squamous cell carcinoma), vaginal and vulvar cancers. In addition, some squamous cell carcinomas of the cervix develop at a young age and have a poor prognosis. Small-cell neuroendocrine carcinoma (SCNEC) of the cervix is a rare, aggressive malignancy frequently coexisting with adenocarcinoma. Using Xenium spatial transcriptomics, we profiled over one million cells from an HPV18-positive mixed histology cervical cancer to elucidate the adenocarcinoma-to-SCNEC differentiation trajectory, TGF-β-EMT pathway activation, tumor-stromal interactions, and immune microenvironment organization. These findings aim to clarify neuroendocrine differentiation mechanisms and identify therapeutic targets.
Methods
Whole exome sequencing, RNA-seq, single-cell RNA sequencing, Target bisulfite sequencing, Spatial transcriptome analysis
Participants/materials
cervical cancer total of 19 + 4 + 96 cases, NIKS18 cell line
[Whole exome sequencing] 1 case: 3 samples of tumor/tumor-derived organoids/peripheral blood cell, 4 cases: 8 tumor samples, 2 peripheral blood samples, 2 normal areas near the tumors, 96 cases: 96 tumor samples
[RNA-seq] 1 case: 2 samples of tumor/tumor-derived organoids, 13 cases: 13 tumor samples, 5 cases: multiple sampling from within the same tumor for a total of 77 samples, 3 cases: 3 samples from normal cervical tissue-derived organoids, 1 case: 4 samples from normal cervical tissue, siRNA-mediated knockdown samples of NIKS18 cell line (siNPM3: 2 samples, siNC: 3 samples)
[single-cell RNA-seq] 50 cells of normal cervical tissue-derived organoids of one cervical cancer
[Target bisulfite-seq] 96 tumor samples of 96 cervical cancer
[Xenium In Situ Gene Expression] One tumor sample of HPV18-positive cervical cancer exhibiting a mixed histology of SCNEC and adenocarcinoma
URL
N/A

Datasets

CartDataset IDType of dataAnalysis methodAccess criteriaDate published
JGAD000708NGS (Exome, RNA-seq)
  • WES
  • RNA-seq
Controlled-access (Type I)2022-12-02
JGAD000713NGS (Exome, RNA-seq)
  • WES
  • RNA-seq
Controlled-access (Type I)2022-12-21
JGAD000966NGS (Exome)
  • WES
Controlled-access (Type I)2025-09-26
JGAD000770NGS (RNA-seq, scRNA-seq)
  • RNA-seq
  • scRNA-seq
Controlled-access (Type I)2023-10-12
JGAD000967NGS (Target bisulfite-seq)
  • Methyl-seq
Controlled-access (Type I)2025-09-26
JGAD001062Xenium In Situ Gene Expression
  • Spatial transcriptomics
Controlled-access (Type I)2026-08-21

Data provider

Principal investigator
Kenbun Sone
Affiliation
Department of Obstetrics and Gynecology, The University of Tokyo Hospital

Research projects

No research projects.

Grants

NameTitleProject number
Japan Program for Infectious Diseases Research and Infrastructure, Japan Agency for Medical Research and Development (AMED)
Study of HPV-18 persistent infection and carcinogenesis in the squamocolumnar junction cells using novel culture technologies
  • JP22wm0325014
Basis for Supporting Innovative Drug Discovery and Life Science Research (BINDS), Japan Agency for Medical Research and Development (AMED)
Transcriptome analysis of single cell and micro tissue sections for supporting of drug discovery
  • JP21am0101104
Japan Program for Infectious Diseases Research and Infrastructure, Japan Agency for Medical Research and Development (AMED)
Elucidation of stem cell carcinogenesis mechanism of HPV18-associated cervical cancer by integration of single-cell analysis technologies Japan Agency for Medical Research and Development
  • JP24wm0325057
KAKENHI Grant-in-Aid for Early-Career Scientists
Identification of the cell of origin of uterine cervical cancer and elucidation of the regulatory mechanism for carcinogenesis and differentiation
  • 22K16853
Basis for Supporting Innovative Drug Discovery and Life Science Research (BINDS), Japan Agency for Medical Research and Development (AMED)
Support of life science studies by all-in-one single cell/micro tissue multi-omics analysis
  • JP25ama121055

Related publications

TitleDOIDataset ID
Cells with stem-like properties are associated with the development of HPV18-positive cervical cancer
https://doi.org/10.1111/cas.15664 (opens in a new tab)
Application of organoid culture from HPV18-positive small cell carcinoma of the uterine cervix for precision medicine
https://doi.org/10.1002/cam4.5588 (opens in a new tab)
TGF-β drives adenocarcinoma-to-SCNEC cell differentiation with periostin-producing CAF activation in cervical cancer
N/A

Controlled access users

No use of the controlled access data has been recorded.