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 |
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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 |
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