NBDC Research ID: hum0011.v1
SUMMARY
Aims: To clarify integrated HBV sequences in the human genome.
Methods: Target enrichment sysem-based next generation sequencer
Participants/Materials: PLC/PRF/5 cell, HepG22215 cell, and HB-HCC primary tissues
Data Set ID | Type of Data | Criteria | Release Date |
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JGAS000015 | Target Capture Genome Sequence (NGS) | Controlled Access (Type I) | 2015/10/07 |
* Data users need to apply the Form 2 (Application Form for Using NBDC Human Data) to reach the Controlled Access Data. Learn more
MOLECULAR DATA
Participants/Materials |
1 PLC/PRF/5 cell 1 HepG22215 cell 8 HB-HCC primary tissues |
Targets | Exome |
Target Loci for Capture Methods | hepatitis B viral integrants with flanking human genomic sequences |
Platform | Roche GS FLX Titanium |
Library Source | HB-HCC primary tissues |
Cell Lines |
PLC/PRF/5 cell [hepatocellular carcinoma cell line (producing HBsAg)] HepG22215 cell [hepatoblastoma cell line (contain an integrated copy of the HBV genome)] |
Library Construction (kit name) | custom |
Fragmentation Methods | Covaris |
Spot Type | GS Run Processor |
Read Length (without Barcodes, Adaptors, Primers, and Linkers) | 321.10 bp |
Japanese Genotype-phenotype Archive Data set ID | JGAD000015 |
Total Data Volume | 1.84 GB |
Comments (Policies) | NBDC policy |
DATA PROVIDER
Principal Investigator: Hiroyuki Yamamoto
Affiliation: St. Marianna University School of Medicine, Division of Gastroenterology and Hepatology
Project / Group Name:
Funds / Grants (Research Project Number):
Name | Title | Project Number |
---|---|---|
KAKENHI Grant-in-Aid for Scientific Research (C) | Sequence analysis at HBV integrants and flanking host genomes | 23590964 |
PUBLICATIONS
Title | DOI | Data Set ID | |
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1 | DNA methylation at hepatitis B viral integrants is associated with methylation at flanking human genomic sequences. | doi: 10.1101/gr.175240.114. | JGAD000015 |
2 |
USERS (Controlled-Access Data)
Principal Investigator: | Affiliation: | Data in Use (Data Set ID) | Period of Data Use |
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