NBDC Research ID: hum0118.v1
SUMMARY
Aims: exploration of biomarkers discriminating lymph node metastasis in endometrial cancers
Methods: CAGE (Cap Analysis of Gene Expression), Sanger sequencing
Participants/Materials: surgically dissected tumor tissues from 17 endometrial cancer patients
| Dataset ID | Type of Data | Criteria | Release Date |
|---|---|---|---|
| JGAS000124 | Controlled-access (Type I) | 2017/12/11 |
*Data users need to apply an application for Using NBDC Human Data to reach the Controlled-access Data. Learn more
MOLECULAR DATA
| Participants/Materials | 15 endometrial cancer patients (ICD10: C54.1) |
| Targets | CAGE-seq |
| Target Loci for Capture Methods | - |
| Platform | Illumina [HiSeq 2500] |
| Library Source | RNA extracted from surgically dissected tumor tissues |
| Cell Lines | - |
| Library Construction (kit name) | CAGE assay (*References) |
| Fragmentation Methods | - |
| Spot Type | Single-end |
| Read Length (without Barcodes, Adaptors, Primers, and Linkers) | 47 bp |
| Japanese Genotype-phenotype Archive Dataset ID | JGAD000135 |
| Total Data Volume | 5 GB (fastq) |
| Comments (Policies) | NBDC policy |
1) Detecting expressed genes using CAGE. Methods Mol Biol. 2014; 1164:67–85. (doi: 10.1007/978-1-4939-0805-9_7)
| Participants/Materials | 3 endometrial cancer patients (ICD10: C54.1) |
| Targets | Sanger sequencing |
| Target Loci for Capture Methods | TACC2(chr10:123,748,689-124,014,057 [ref: hg19]) |
| Platform | Thermo Fisher Scientific (ABI) 3500 Genetic Analyzer |
| Library Source | cDNA synthesize from RNA extracted from surgically dissected tumor tissues |
| Cell Lines | - |
| Library Construction (kit name) | BigDye Terminator v3.1 Cycle Sequencing kit |
| Japanese Genotype-phenotype Archive Dataset ID | JGAD000135 |
| Total Data Volume | 5 GB (fasta) |
| Comments (Policies) | NBDC policy |
DATA PROVIDER
Principal Investigator: Yoshihide Hayashizaki
Affiliation: RIKEN Preventive Medicine and Diagnosis Innovation Program
Project / Group Name:Genome-wide exploration for biomarkers in endometrial cancer by using CAGE (Yasuhisa Terao, Juntendo University)
Funds / Grants (Research Project Number):
| Name | Title | Project Number |
|---|---|---|
| KAKENHI Grant-in-Aid for Scientific Research (C) | Exploration of biomarkers to predict lymph node metastasis in endometrial cancer by using CAGE | 15K10732 |
| Research Grant to RIKEN Omics Science Center from MEXT | ||
| Research Grant to RIKEN Preventive Medicine and Diagnosis Innovation Program from MEXT |
PUBLICATIONS
| Title | DOI | Dataset ID | |
|---|---|---|---|
| 1 | Promoter-level transcriptome in primary lesions of endometrial cancer identified biomarkers associated with lymph node metastasis. | doi: 10.1038/s41598-017-14418-5 | JGAD000135 |
| 2 |
USRES (Controlled-access Data)
| Principal Investigator: | Affiliation: | Data in Use (Dataset ID) | Period of Data Use |
|---|---|---|---|
