VISDB - VIS Detail

Expression analysis of TCGA samples

Basic Information

VIS ID

TVIS10018713

Fusion event

HBV-CDC27 integration

Validated

No

Detection method

VirusFinder

Data source

Curated

Sample type

Nontumor

Disease

Hepatocellular carcinoma (HCC)

Quality evaluation

Normal

Reported year

2017

PubMed ID

29212479

Virus Sequence

Virus name

HBV

Reference genome

NC_003977

Start

1769

Integrated sequence

GGACTCTCAGCAATGTCAACGACCGACCTTGAGGCATACTTCAAAGACTGTTTGTTTAAAGACTGGGAGGAGTTGGGGGAGGAGATTAGGTTAAAGGTCT| |TTGTACTAGGAGGCTGTAGGCATAAATTGGTCTGCGCACCAGCACCATGCAACTTTTTCACCTCTGCCTAATCATCTCTTGTTCATGTCCTACTGTTCAA

Host Sequence

Chromosome

chr17

Cytoband

q21.32

Reference genome

GRCh37.55

Start

45219226/47141860 (Hg38)

End

45219226/47141860 (Hg38)

Location type

Exon8

Target gene

CDC27

miRNAs that regulate target gene

hsa-mir-124-3p ; hsa-mir-32-5p ; hsa-mir-16-5p ; hsa-mir-223-3p ; hsa-mir-539-5p ; hsa-mir-4470 ; hsa-mir-491-3p ; hsa-mir-4275 ; hsa-mir-767-5p ; hsa-mir-502-3p ; hsa-mir-501-3p ; hsa-mir-497-3p ; hsa-mir-548t-3p ; hsa-mir-548ap-3p ; hsa-mir-548aa ; hsa-mir-548z ; hsa-mir-548h-3p ; hsa-mir-548d-3p ; hsa-mir-548bb-3p ; hsa-mir-548ac ; hsa-mir-3148 ; hsa-mir-3917 ; hsa-mir-590-3p ; hsa-mir-4282 ; hsa-mir-548c-3p ; hsa-mir-3074-5p ; hsa-mir-222-3p ; hsa-mir-221-3p ; hsa-mir-548v ; hsa-mir-187-5p ; hsa-mir-1283 ; hsa-mir-6893-3p ; hsa-mir-370-3p ; hsa-mir-944 ; hsa-mir-10a-3p ; hsa-mir-1253 ; hsa-mir-5579-5p ; hsa-mir-5197-3p ; hsa-mir-4311 ; hsa-mir-5583-3p ; hsa-mir-5701 ; hsa-mir-5588-5p ; hsa-mir-4799-3p ; hsa-mir-4720-5p ; hsa-mir-6868-5p ; hsa-mir-3128 ; hsa-mir-3126-3p ; hsa-mir-92b-3p ; hsa-mir-92a-3p ; hsa-mir-195-5p ; hsa-mir-15b-5p ; hsa-mir-15a-5p ; hsa-mir-218-2-3p ; hsa-mir-27a-3p

Nearest miRNA

hsa-mir-1180/Upstream/168760; hsa-mir-10226/Downstream/891022;

Nearest TSS

ENST00000595228/Upstream/4616; ENST00000572193/Downstream/521;

Nearest CpG islands

None/Target, chr17-CpG: 26/Upstream/41471, chr17-CpG: 64/Downstream/47025

Upstream sequence

CAAGATCCAAGATAAAGAAGGCATCCCCCCCGACCAGCAGAGGCTCATCTTTGCAGGCAAGCAGCTGGAAGATGGCCGCACTCTTTCTGACTACAACATC

Downstream sequence

ACTCTGAAAGTTCAAAATAGGCCCTTCCAATTTGGCACAGTACCCAACCAGTATTGTAGTGGTGAGAAGGTAGATGGCTCAAAATATTTATAGCTTCTTT

Reference

Yoo, S., et al. A pilot systematic genomic comparison of recurrence risks of hepatitis B virus-associated hepatocellular carcinoma with low- and high-degree liver fibrosis. BMC Med ,2017, 15(1): 214.