VISDB - VIS Detail

Expression analysis of TCGA samples

Basic Information

VIS ID

TVIS10018141

Fusion event

HBV-PARVB integration

Validated

No

Detection method

RNA-Seq

Data source

Curated

Sample type

Tumor

Disease

Hepatocellular carcinoma (HCC)

Quality evaluation

Normal

Reported year

2017

PubMed ID

28622513

Virus Sequence

Virus name

HBV

Reference genome

Not given

Start

50

Host Sequence

Chromosome

chr22

Cytoband

q13.31

Reference genome

GRCh37/hg19

Start

44545197/44149317 (Hg38)

End

44545197/44149317 (Hg38)

Location type

Intronic

Fragile sites / regions

FRA22A

Target gene

PARVB

miRNAs that regulate target gene

hsa-let-7b-5p ; hsa-mir-5787 ; hsa-mir-4505 ; hsa-mir-6860 ; hsa-mir-612 ; hsa-mir-5189-5p ; hsa-mir-3187-5p ; hsa-mir-1285-3p ; hsa-mir-616-5p ; hsa-mir-373-5p ; hsa-mir-371b-5p ; hsa-mir-3613-3p ; hsa-mir-4478 ; hsa-mir-4419b ; hsa-mir-3929 ; hsa-mir-5698 ; hsa-mir-1178-3p ; hsa-mir-6794-3p ; hsa-mir-143-5p ; hsa-mir-4430 ; hsa-mir-3652 ; hsa-mir-3622b-5p ; hsa-mir-122-5p ; hsa-mir-504-3p ; hsa-mir-3135b ; hsa-mir-3934-3p ; hsa-mir-6499-3p ; hsa-mir-367-5p ; hsa-mir-1267 ; hsa-mir-1304-3p ; hsa-mir-5693 ; hsa-mir-484 ; hsa-mir-3155b ; hsa-mir-3155a ; hsa-mir-4639-3p ; hsa-mir-5007-5p ; hsa-mir-3664-5p ; hsa-mir-4797-5p ; hsa-mir-2355-5p ; hsa-mir-6729-3p ; hsa-mir-1287-5p ; hsa-mir-3121-5p ; hsa-mir-501-5p ; hsa-mir-548c-3p ; hsa-mir-6739-5p ; hsa-mir-3153 ; hsa-mir-6733-5p ; hsa-mir-4668-5p ; hsa-mir-5589-5p ; hsa-mir-4731-5p ; hsa-mir-4646-5p ; hsa-mir-204-3p ; hsa-mir-3692-5p ; hsa-mir-6884-3p ; hsa-mir-1306-5p ; hsa-mir-370-3p ; hsa-mir-6893-3p ; hsa-mir-340-3p ; hsa-mir-4684-5p ; hsa-mir-6771-3p ; hsa-mir-6827-3p

Nearest miRNA

hsa-mir-1281/Upstream/2226020; hsa-let-7a-3/Downstream/1051637;

Nearest TSS

ENST00000624155/Upstream/12853; ENST00000484345/Downstream/13417;

Nearest CpG islands

None/Target, chr22-CpG: 279/Upstream/124407, chr22-CpG: 154/Downstream/181419

Upstream sequence

agaatggtGTGGCCTGAGATTGCTTTCATCTCTCGGTAGATACCATGTTAATTCATTCTGCGAAAGACACATTTTCGGCACTGGAGCCACCAGCAAGGAA

Downstream sequence

GAAGACAGAATCCTTTGATTTGCCTGGTAGCTTCCCACTCCAGCCTGTCCCTTCCTCACCTCCACATTGCAAGTTTAGGTGTCTGTAGCTCTCTGTGCCC

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