VISDB - VIS Detail

Expression analysis of TCGA samples

Basic Information

VIS ID

TVIS10016477

Fusion event

HBV-ERBB4 integration

Validated

No

Detection method

WGS

Data source

Curated

Sample type

Tumor

Disease

Hepatocellular carcinoma (HCC)

Quality evaluation

Good

Reported year

2012

PubMed ID

22267523

Virus Sequence

Virus name

HBV

Reference genome

NC_003977

Start

1406

End

1441

Orient

-

Integrated sequence

CTGCGCGGGACGTCCTTTGTTTACGTCCCGTCGGCG

Host Sequence

Chromosome

chr2

Cytoband

q34

Reference genome

GRCh37/hg19

Start

212343514/211478789 (Hg38)

End

212343549/211478824 (Hg38)

Orient

+

Location type

Intronic

Target gene

ERBB4

miRNAs that regulate target gene

hsa-mir-372-3p ; hsa-mir-19a-3p ; hsa-mir-302d-3p ; hsa-mir-146a-5p ; hsa-mir-145-5p ; hsa-mir-221-3p ; hsa-mir-302b-3p ; hsa-mir-193a-3p ; hsa-mir-146b-5p

Nearest miRNA

hsa-mir-10b/Upstream/3723908; hsa-mir-1244-1/Downstream/947439;

Nearest TSS

ENST00000437798/Upstream/807174; ENST00000434559/Downstream/186530;

Nearest CpG islands

None/Target, chr2-CpG: 135/Upstream/1001977, chr2-CpG: 86/Downstream/1058632

Nearest cancer related gene

ERBB4(OG, No orient, 0)

Upstream sequence

cacctctgcctcccaaagtgctgggattacaggcatgagccactttgcccagccaaaactcttaacccaacatcgaacacttggtaagcactcaataaat

Downstream sequence

TCAGAAACAAAACCAATTCCAGGAAAAAAACATCTTCAAATGTGCATTATCCCACAGCATAATATTGAAACTCCTCAGGATGGTAATGTAAGGCTTCTTC

Target sequence

TTCTCAGATGTACTAATGGTAACATCCTTTTTTCT

Reference

Jiang, S., et al. Re-evaluation of the carcinogenic significance of hepatitis B virus integration in hepatocarcinogenesis. PLoS One ,2012, 7(9): e40363.