VISDB - VIS Detail

Expression analysis of TCGA samples

Basic Information

VIS ID

TVIS10007064

Fusion event

HBV-ROS1 integration

Validated

Yes

Detection method

PCR and Sanger sequencing

Data source

Curated

Sample type

Tumor

Disease

Hepatocellular carcinoma (HCC)

Quality evaluation

Normal

Reported year

2016

PubMed ID

26553052

Virus Sequence

Virus name

HBV

Subtype

C

Reference genome

Not given

Start

2905

End

3083

Orient

-

Host Sequence

Chromosome

chr6

Cytoband

q22.1

Reference genome

GRCh37/hg19

Start

117647556/117326393 (Hg38)

End

117647556/117326393 (Hg38)

Orient

-

Location type

Exon

Target gene

ROS1

miRNAs that regulate target gene

hsa-mir-26b-5p ; hsa-mir-33a-5p ; hsa-mir-300

Nearest miRNA

hsa-mir-10398/Upstream/10542173; hsa-mir-1202/Downstream/1742654;

Nearest TSS

ENST00000381078/Upstream/60819; ENST00000533950/Downstream/10947;

Nearest CpG islands

None/Target, chr6-CpG: 120/Upstream/55277, chr6-CpG: 113/Downstream/155941

Nearest cancer related gene

ROS1(OG, No orient, 0)

Upstream sequence

tggtagtttcttttgctgtgcagaagctctttagtttaattagatcccatttgtcaatgttggcttttgttgccattgcttttggtgttttggacatgaa

Downstream sequence

AAATTATTTGAAGTGCTCTTTCTGCAAAAAATAATAAATACAGAAAATATACATGACAATATACCTGTTATTTCTAGTTGTTCATAGATCTTCTTAGTGA

Reference

Kawai-Kitahata, F., et al. Comprehensive analyses of mutations and hepatitis B virus integration in hepatocellular carcinoma with clinicopathological features. J Gastroenterol ,2016,51(5): 473-486.