NBDC Research ID: hum0048.v1
SUMMARY
Aims: The genomic biology of ampullary carcinomas is currently poorly defined, we have conducted an in-depth analysis of the genomic abnormalities of these carcinomas through an international multicenter collaboration to establish a potential basis for treatments of this disease.
Methods: Whole exome sequencing was performed on the Illumina HiSeq 2000/2500 platforms in a discovery set of 60 ampullary carcinomas.
Participants/Materials: We investigated a large cohort of clinically and pathologically well-characterized patients with ampullary cancer that included 28 Japanese patients and 32 American patients.
| Dataset ID | Type of Data | Criteria | Release Date |
|---|---|---|---|
| DRA004251 | NGS (Exome) | Unrestricted-access | 2016/02/05 |
*When the research results including the data which were downloaded from NHA/DRA, are published or presented somewhere, the data user must refer the papers which are related to the data, or include in the acknowledgment. Learn more
MOLECULAR DATA
| Participants/Materials |
60 patients with an ampullary cancer (28 Japanese patients and 32 American patients) |
| Targets | Exome |
| Target Loci for Capture Methods | - |
| Platform | Illumina [HiSeq 2000/2500] |
| Library Source | gDNAs extracted from ampullary carcinomas specimen |
| Cell Lines | - |
| Library Construction (kit name) | SureSelect Human All Exon Kit v4.0 (Agilent Technologies) |
| Fragmentation Methods | Ultrasonic fragmentation (Covaris SS) |
| Spot Type | Paired-end |
| Read Length (without Barcodes, Adaptors, Primers, and Linkers) | 100 bp x 2 |
| DDBJ Sequence Read Archive ID | DRA004251 |
| Total Data Volume | 600 GB (fastq) |
| Comments (Policies) | NBDC policy |
DATA PROVIDER
Principal Investigator: Shinichi Yachida
Affiliation: Laboratory of Clinical Genomics, National Cancer Center Research Institute / Department of Cancer Genome Informatics, Graduate School of Medicine/Faculty of Medicine, Osaka University
Project / Group Name:
URL: http://www.ncc.go.jp/jp/information/press_release_20160126.html
Funds / Grants (Research Project Number):
| Name | Title | Project Number |
|---|---|---|
| KAKENHI Grant-in-Aid for Scientific Research on Innovative Areas | Molecular pathological analysis and prediction of clinical course of a rare tumor by systematic approach to biology | 25134719 |
PUBLICATIONS
| Title | DOI | Dataset ID | |
|---|---|---|---|
| 1 | Genomic Sequencing Identifies ELF3 as a Driver of Ampullary Carcinoma | doi: 10.1016/j.ccell.2015.12.012 | DRA004251 |
| 2 | - | - | - |
