VISDB - VIS Detail

Expression analysis of TCGA samples

Basic Information

VIS ID

TVIS10017399

Fusion event

HBV-NOTCH2 integration

Validated

No

Detection method

Capture-NGS platform

Data source

Curated

Sample type

Tumor

Disease

Hepatocellular carcinoma (HCC)

Quality evaluation

Good

Reported year

2019

PubMed ID

30070724

Virus Sequence

Virus name

HBV

Subtype

C

Reference genome

NC_003977

Start

1513

End

1600

Integrated sequence

ACCGACCACGGGGCGCACCTCTCTTTACGCGGACTCCCCGTCTGTGCCTTCTCATCTGCCGGACCGTGTGCACTTCGCTTCACCTCTG

Host Sequence

Chromosome

chr1

Cytoband

p12

Reference genome

GRCh37/hg19

Start

120569613/120026990 (Hg38)

End

120569707/120027084 (Hg38)

Location type

Intron

Target gene

NOTCH2

miRNAs that regulate target gene

hsa-mir-1-3p ; hsa-mir-16-5p ; hsa-mir-181c-5p ; hsa-mir-326 ; hsa-mir-34a-5p ; hsa-mir-107 ; hsa-mir-155-5p ; hsa-mir-183-5p ; hsa-mir-181a-5p ; hsa-mir-744-5p ; hsa-mir-130b-5p ; hsa-mir-27b-3p ; hsa-mir-196a-5p ; hsa-mir-106a-5p ; hsa-mir-92a-3p ; hsa-mir-25-3p ; hsa-mir-17-5p ; hsa-let-7c-5p ; hsa-mir-29b-3p ; hsa-mir-6868-3p ; hsa-mir-182-5p ; hsa-mir-3124-3p ; hsa-mir-515-5p ; hsa-mir-519e-5p ; hsa-mir-3942-3p ; hsa-mir-23b-3p ; hsa-mir-205-5p ; hsa-mir-96-5p ; hsa-mir-1271-5p ; hsa-mir-5695 ; hsa-mir-519d-5p ; hsa-mir-6838-5p ; hsa-mir-4274 ; hsa-mir-497-5p ; hsa-mir-424-5p ; hsa-mir-195-5p ; hsa-mir-15b-5p ; hsa-mir-15a-5p ; hsa-mir-29b-1-5p ; hsa-mir-543 ; hsa-mir-4753-3p ; hsa-mir-5100 ; hsa-mir-6794-3p ; hsa-mir-210-5p ; hsa-mir-4749-3p ; hsa-mir-1248 ; hsa-mir-1237-3p ; hsa-mir-6756-3p ; hsa-mir-3127-3p ; hsa-mir-10b-3p ; hsa-mir-4639-3p ; hsa-mir-146a-5p ; hsa-mir-9-3p ; hsa-mir-9-5p ; hsa-mir-191-5p

Nearest miRNA

hsa-mir-101-1/Upstream/2932262; hsa-mir-1182/Downstream/25823503;

Nearest TSS

ENST00000473358/Upstream/39940; ENST00000608123/Downstream/2879;

Nearest CpG islands

None/Target, chr1-CpG: 111/Upstream/130393, chr1-CpG: 95/Downstream/41650

Nearest cancer related gene

NOTCH2(TSG, No orient, 0)

Upstream sequence

AAACCTTTTTTTTTACAGAGCCTAATTAATAACTTAATGACTGTGTACATAGCAATGTGTGTGTATGTATATGTCTGTGAGCTATTAATGTTATTAATTT

Downstream sequence

gggattacaggtgcgtgccaccacgcccagctaatttttttgcatttttagtagagatgggatttcaccgtgttagccaggatggtctcCAACCTTGGTT

Target sequence

gctcaggctggagtgcagtggtgcaatcttggctcactgcaagctccgcctcctgggttcaggccattctcctgcctcagcctcccgagtaact

Reference

Li, C. L., et al.Androgen Receptor Enhances Hepatic Telomerase Reverse Transcriptase Gene Transcription After Hepatitis B Virus Integration or Point Mutation in Promoter Region. Hepatology,2019, 69(2): 498-512.