VISDB - VIS Detail

Expression analysis of TCGA samples

Basic Information

VIS ID

TVIS10016009

Fusion event

HBV-CACHD1 integration

Validated

Yes

Detection method

Alu PCR and sequencing

Data source

Curated

Sample type

Nontumor

Disease

Hepatocellular carcinoma (HCC)

Quality evaluation

Normal

Reported year

2012

PubMed ID

22962577

Virus Sequence

Virus name

HBV

Reference genome

Not given

Start

1822

Orient

+

Host Sequence

Chromosome

chr1

Cytoband

q21

Reference genome

GRCh37/hg19

Start

64966651/64500968 (Hg38)

End

64966651/64500968 (Hg38)

Orient

-

Location type

Intronic

Fragile sites / regions

FRA1L

Target gene

CACHD1

miRNAs that regulate target gene

hsa-mir-18a-3p ; hsa-mir-324-5p ; hsa-mir-185-5p ; hsa-let-7c-5p ; hsa-mir-6875-3p ; hsa-mir-5006-3p ; hsa-mir-4755-5p ; hsa-mir-211-5p ; hsa-mir-204-5p ; hsa-mir-623 ; hsa-mir-4778-3p

Nearest miRNA

hsa-mir-12132/Upstream/1173984; hsa-mir-101-1/Downstream/78879;

Nearest TSS

ENST00000473358/Upstream/30176; ENST00000486580/Downstream/4947;

Nearest CpG islands

None/Target, chr1-CpG: 111/Upstream/30037, chr1-CpG: 24/Downstream/4707

Nearby gene

CDH11

Upstream sequence

CCTATTAACAAGGCAATTTTACCTAAAGCTAACAAACGAGCTACTGTCAATTAACCCCACCTTTAAAAGAACCCTCCCTAggccaggcacagtgactcac

Downstream sequence

gcctataatcccagcactttgggaggccgaggctggtggatcacttgaggtcaagagttcgagaccagcctggccaacatggcgaaaccccatctctact

Reference

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