NBDC Research ID: hum0182.v1
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SUMMARY
Aims: Indetification of stractural variations by using of long read whole genome sequencing data
Methods: Whole genome sequencing with Nanopore sequencer
Participants/Materials: DNA samples from 2 Japanese individuals.
1) DNA extracted from normal blood cell of a liver cancer patient (ICGC: RK067 [hum0158])
2) HapMap sample (NA18943)
| Data Set ID | Type of Data | Criteria | Release Date |
|---|---|---|---|
| JGAS000180 | NGS (WGS): RK067 | Controlled-Access (Type I) | 2019/06/20 |
| DRA008482 | NGS (WGS): NA18943 | Unrestricted Access | 2019/06/20 |
* Data users need to apply an application for Using NBDC Human Data to reach the Controlled-access Data.
MOLECULAR DATA
| Participants/Materials |
1) RK067 (a liver cancer patient): 1 case 2) NA18943 (HapMap): 1 sample |
| Targets | WGS |
| Target Loci for Capture Methods | - |
| Platform | Nanopore［MinION］ |
| Library Source |
1) DNA extracted from blood sample (normal cell) of a liver cancer patient 2) HapMap DNA sample |
| Cell Lines | https://www.coriell.org/0/Sections/Search/Sample_Detail.aspx?Ref=NA18943&Product=DNA |
| Library Construction (kit name) | 1D Ligation Sequencing Kit (Cat#SQK-LSK108) |
| Fragmentation Methods | g-TUBE (Covaris) |
| Spot Type | Single-end |
| Read Length (without Barcodes, Adaptors, Primers, and Linkers) |
1) 7463 bp 2) 3479 bp |
| Japan Genotype-Phenotype Archive Data Set ID / DDBJ Sequence Read Archive ID |
1) JGAD000261 2) DRA008482 |
| Total Data Volume |
1) 128 GB (fastq) 2) 79.7 GB (fastq) |
| Comments (Policies) | NBDC policy |
When the research results including the data which were downloaded from NHA/DRA/JGA, 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
DATA PROVIDER
Principal Investigators: Akihiro Fujimoto
Affiliation: Department of Drug Discovery Medicine, Graduate School of Medicine, Kyoto University
Project / Group Name: Japan Agency for Medical Research and Development (AMED)
Funds / Grants (Research Project Number):
| Name | Title | Project Number |
|---|---|---|
| Platform Program for Promotion of Genome Medicine, Japan Agency for Medical Research and Development (AMED) | Development of advanced data analysis methods for genome sequencing | 18km0405207h0003 |
PUBLICATIONS
| Title | DOI | Data Set ID | |
|---|---|---|---|
| 1 | 投稿中 | ||
| 2 |
USERS (Controlled-Access Data)
| Principal Investigator: | Affiliation: | Data in Use (Data Set ID) | Period of Data Use |
|---|---|---|---|
