VISDB - VIS Detail

Expression analysis of TCGA samples

Basic Information

VIS ID

TVIS10000390

Fusion event

HBV-NTM integration

Validated

Yes

Detection method

invPCR+NAH

Data source

Curated

Sample type

Cell line

Disease

Hepatocellular carcinoma (HCC)

Quality evaluation

Good

Reported year

2017

PubMed ID

28414318

Virus Sequence

Virus name

HBV

Subtype

C

Reference genome

AB033556.1

Start

1606

End

1659

Integrated sequence

CATGGAAACCACCGTGAACACCCACCAGGTCTTGCCCAAGGTCTTACATAAGAG

Host Sequence

Chromosome

chr11

Cytoband

q25

Reference genome

GRCh37/hg19

Start

131410505/131540495 (Hg38)

End

131410389/131540611 (Hg38)

Location type

Intronic

Target gene

NTM

miRNAs that regulate target gene

hsa-mir-182-5p ; hsa-mir-340-5p ; hsa-mir-501-5p ; hsa-mir-500b-5p ; hsa-mir-362-5p

Nearest miRNA

hsa-let-7a-2/Upstream/873692; hsa-mir-4697/Downstream/2357893;

Nearest TSS

ENST00000527297/Upstream/85032; ENST00000416661/Downstream/5;

Nearest CpG islands

None/Target, chr11-CpG: 30/Upstream/623756, chr11-CpG: 16/Downstream/149851

Target sequence

AAGATCTTTTTTATATTCAGCCATGCCAATTGACCTACTACCCTCTCCATAGCCAAAGGAATGCCCAAATTTCCACAGAAAGGCATTTTTATGTAAGTTGAATGGCCTTGGAGGTC

Reference

Chauhan, R., et al. Initial sites of hepadnavirus integration into host genome in human hepatocytes and in the woodchuck model of hepatitis B-associated hepatocellular carcinoma. Oncogenesis ,2017,6(4): e317.