VISDB - VIS Detail

Expression analysis of TCGA samples

Basic Information

VIS ID

TVIS10016087

Fusion event

HBV-NRL 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

1545

Orient

+

Host Sequence

Chromosome

chr14

Cytoband

q11.2

Reference genome

GRCh37/hg19

Start

24556261/24087052 (Hg38)

End

24556261/24087052 (Hg38)

Orient

+

Location type

Intronic

Target gene

NRL

miRNAs that regulate target gene

hsa-mir-592 ; hsa-mir-6792-3p ; hsa-mir-4691-5p ; hsa-mir-653-3p ; hsa-mir-4420 ; hsa-mir-181b-3p ; hsa-mir-181b-2-3p ; hsa-mir-197-3p ; hsa-mir-597-5p ; hsa-mir-6879-3p ; hsa-mir-2116-3p ; hsa-mir-361-3p ; hsa-mir-1208 ; hsa-mir-6760-3p ; hsa-mir-1306-5p ; hsa-mir-216b-3p ; hsa-mir-892a

Nearest miRNA

hsa-mir-208a/Upstream/668989; hsa-mir-1185-1/Downstream/56437;

Nearest TSS

ENST00000550708/Upstream/2427; ENST00000560657/Downstream/7001;

Nearest CpG islands

None/Target, chr14-CpG: 35/Upstream/5113, chr14-CpG: 57/Downstream/6995

Nearby gene

PCK2

Upstream sequence

ATGCAAAAGAGAAATGTTCAAAAGTCAGTATTTGTTTTAAAAATTTAGTTAAATATCACTATAACCTGGCAAGCCATAAACATCTTCTTTAGACAACTAA

Downstream sequence

TGTGACTCCAGGAATAATAGAACAGAGGAAGGAGACTAAGGAGGCAGTAGGTGTAGATGTGAGATAGAGGACAGGACAAGTCAGGGTCTCCATGGGGATT

Reference

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