NBDC Research ID: hum0391.v1
SUMMARY
Aims: In cancer treatment using chemotherapeutic agents, a few chemotherapy-resistant cancer cells survive and cause cancer recurrence. These cancer cell subpopulations with anticancer drug-resistant properties called "persister" tumor cells. Therefore, elucidating the molecular basis of persistent tumor generation and establishing eradication strategies of them will aid of many cancer patients. In this study, we use single-cell Multiome analysis (10X Genomics) of a uniquely established human tongue cancer organoid library to characterize persister tumor cell properties based on their gene expression profile and chromatin accessibility.
Methods: scMultiome (10x Genomics) analysis
Participants/Materials: Tongue cancer organoids established from tumor tissues of tongue cancer patients
| Dataset ID | Type of Data | Criteria | Release Date |
|---|---|---|---|
| JGAS000606 | NGS (scRNA-seq, scATAC-seq) | Controlled-access (Type I) | 2024/09/25 |
*Data users need to apply an application for Using NBDC Human Data to reach the Controlled-access Data. Learn more
MOLECULAR DATA
| Participants/Materials |
Tongue cancer (ICD10: C01, C02): 4 cases organoids established from tumor tissues: 4 samples |
| Targets | scRNA-seq, scATAC-seq |
| Target Loci for Capture Methods | - |
| Platform | Illumina [NovaSeq 6000] |
| Library Source | DNAs/RNAs extracted from organoids |
| Cell Lines | - |
| Library Construction (kit name) | Chromium Next GEM Single Cell Multiome ATAC + Gene Expression Reagent Kits |
| Fragmentation Methods | Enzymatic fragmentation |
| Spot Type | Paired-end |
| Read Length (without Barcodes, Adaptors, Primers, and Linkers) |
scRNA-seq: 118 bp scATAC-seq: 99 bp |
| Japanese Genotype-phenotype Archive Dataset ID | JGAD000735 |
| Total Data Volume | 318.4 GB (fastq) |
| Comments (Policies) | NBDC policy |
This study was supported by “Genome Science”. “Genome Science” is a part of the “Support Programs for Three Fields in Life Sciences (cancer, genome and brain sciences)” established by the Ministry of Education, Culture, Sports, Science and Technology (MEXT) under the Grant-in-Aid for Scientific Research on Innovative Areas.
DATA PROVIDER
Principal Investigator: Taku Sato
Affiliation: Department of Biodefence Research, Medical Research Institute, Tokyo Medical and Dental University / Department of Biochemistry and Molecular Biology, Nippon Medical School Graduate School of Medicine
Project / Group Name: -
Funds / Grants (Research Project Number):
| Name | Title | Project Number |
|---|---|---|
| KAKENHI Grant-in-Aid for Transformative Research Areas | Platform for Advanced Genome Sciences | 22H04925 |
PUBLICATIONS
| Title | DOI | Dataset ID | |
|---|---|---|---|
| 1 | Comparative analysis of organoids derived from tongue cancer patients identifies the heritable nature of minimal residual disease | JGAD000735 | |
| 2 |
USRES (Controlled-access Data)
| Principal Investigator | Affiliation | Country/Region | Research Title | Data in Use (Dataset ID) | Period of Data Use |
|---|---|---|---|---|---|
