VISDB - VIS Detail

Expression analysis of TCGA samples

Basic Information

VIS ID

TVIS10018385

Fusion event

HBV-THRB integration

Validated

No

Detection method

RNA-Seq

Data source

Curated

Sample type

Nontumor

Disease

Hepatocellular carcinoma (HCC)

Quality evaluation

Normal

Reported year

2017

PubMed ID

28622513

Virus Sequence

Virus name

HBV

Reference genome

Not given

Start

1727

Host Sequence

Chromosome

chr3

Cytoband

p24.2

Reference genome

GRCh37/hg19

Start

24420594/24379103 (Hg38)

End

24420594/24379103 (Hg38)

Location type

Intronic

Fragile sites / regions

FRA3A

Target gene

THRB

miRNAs that regulate target gene

hsa-mir-27a-3p ; hsa-mir-204-5p ; hsa-mir-155-5p ; hsa-mir-425-5p ; hsa-mir-452-5p ; hsa-mir-4677-3p ; hsa-mir-4679 ; hsa-mir-3161 ; hsa-mir-3689f ; hsa-mir-3689e ; hsa-mir-3689b-5p ; hsa-mir-3689a-5p ; hsa-mir-3926 ; hsa-mir-4778-5p ; hsa-mir-4753-5p ; hsa-mir-6794-3p ; hsa-mir-3152-5p ; hsa-mir-6836-3p ; hsa-mir-15b-3p ; hsa-mir-4264 ; hsa-mir-4797-3p ; hsa-mir-6809-3p ; hsa-mir-4753-3p ; hsa-mir-4436b-5p ; hsa-mir-6509-3p ; hsa-mir-1236-3p ; hsa-mir-6515-3p ; hsa-mir-101-3p ; hsa-mir-200a-3p ; hsa-mir-1238-5p ; hsa-mir-129-5p ; hsa-mir-3659 ; hsa-mir-4658 ; hsa-mir-4758-5p ; hsa-mir-574-5p ; hsa-mir-6790-5p ; hsa-mir-8055 ; hsa-mir-8081 ; hsa-mir-1537-5p ; hsa-mir-320a ; hsa-mir-320b ; hsa-mir-320c ; hsa-mir-320d ; hsa-mir-3607-3p ; hsa-mir-4429 ; hsa-mir-4633-3p ; hsa-mir-4793-5p ; hsa-mir-5002-5p ; hsa-mir-5196-3p ; hsa-mir-6500-5p ; hsa-mir-6870-3p ; hsa-mir-6874-5p ; hsa-mir-9-3p

Nearest miRNA

hsa-mir-12127/Upstream/4241462; hsa-let-7g/Downstream/1285770;

Nearest TSS

ENST00000440867/Upstream/30201; ENST00000455576/Downstream/107492;

Nearest CpG islands

None/Target, chr3-CpG: 148/Upstream/432573, chr3-CpG: 135/Downstream/115250

Nearest cancer related gene

THRB(TSG, No orient, 0)

Upstream sequence

TCCATGGAACTGCTGATGTCCTGGGATCTCCTAATGAGATGGAATCAAGGGAAGGGTGGGTTCATCTCAGCGGCTGTGAGCTTAGCCAAGGTGGTCCATG

Downstream sequence

GCACTAAACCGCCTTCGatgcatatatgtaaatatataaattctatgtacatatacatattcataGATGCATTTATGTGCTCATTTCTACATTCCTATAA

Reference

Cancer Genome Atlas Research Network. Electronic address, w. b. e. and N. Cancer Genome Atlas Research . Comprehensive and Integrative Genomic Characterization of Hepatocellular Carcinoma. Cell ,2017,169(7): 1327-1341 e13