VISDB - VIS Detail

Expression analysis of TCGA samples

Basic Information

VIS ID

TVIS10016072

Fusion event

HBV-GLYAT integration

Validated

Yes

Detection method

LM PCR

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

1883

Orient

+

Host Sequence

Chromosome

chr11

Cytoband

q12.1

Reference genome

GRCh37/hg19

Start

58496078/58728605 (Hg38)

End

58496078/58728605 (Hg38)

Orient

-

Location type

Intron

Target gene

GLYAT

miRNAs that regulate target gene

hsa-mir-498 ; hsa-mir-4284 ; hsa-mir-6829-3p ; hsa-mir-6791-3p ; hsa-mir-4772-3p ; hsa-mir-4638-5p ; hsa-mir-1307-3p ; hsa-mir-1976 ; hsa-mir-1304-3p ; hsa-mir-6741-3p ; hsa-mir-1281 ; hsa-mir-3193 ; hsa-mir-1539 ; hsa-mir-660-3p ; hsa-mir-4485-5p ; hsa-mir-6890-3p ; hsa-mir-891a-3p ; hsa-mir-5693

Nearest miRNA

hsa-mir-129-2/Upstream/1087319; hsa-let-7a-2/Downstream/866472;

Nearest TSS

ENST00000527297/Upstream/4109; ENST00000524629/Downstream/124;

Nearest CpG islands

None/Target, chr11-CpG: 30/Upstream/148757, chr11-CpG: 40/Downstream/176773

Upstream sequence

CCTCTATAACTTTTTACTCTGAAGAATTTCAGGTAGTCAAGAGTGTTTATCCAAATGTTGAGGAAAAGGACTGCAGACTAGAAGCCAGATTTGTTGGCTC

Downstream sequence

AAGTAAATTAGGATGAGTGATGTTATAAGAAACCAGTTGGGAAACCAAGTGGAGAGAGTTCCTCACCACAAGGGTTATTCATACCAGAAGGGCCAGATGA

Reference

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