Expression analysis of TCGA samples
Basic Information
VIS ID
TVIS10004920
Fusion event
HBV-STAT3 integration
Validated
No
Detection method
PCR and Ultra-deep sequencing
Data source
Curated
Sample type
Disease
Hepatocellular carcinoma (HCC)
Quality evaluation
Normal
Reported year
2018
PubMed ID
Virus Sequence
Virus name
HBV
Reference genome
Start
1981
Orient
+
Integrated sequence
CCTTGGGTGGCTTTGGGGCATGGACATTGACCCGTATAAAGAATTTGGAGCTTCTGTGGAGTTACTCTCTTTTTTGCCTTCTGACTTCTTTCCTTCTATT| |CGAGATCTCCTCGACACCGCCTCTGCTCTGTATCGGGAGGCCTTAGAGTCTCCGGAACATTGTTCACCTCACCATACAGCACTCAGGCAAGCTATTCTGT
Host Sequence
Chromosome
chr17
Cytoband
q21.2
Reference genome
Start
End
40516449/42364431 (Hg38)
Orient
-
Location type
Intron
Target gene
miRNAs that regulate target gene
hsa-mir-20b-5p ; hsa-mir-125b-5p ; hsa-mir-337-3p ; hsa-mir-155-5p ; hsa-mir-93-5p ; hsa-mir-21-5p ; hsa-mir-92a-3p ; hsa-mir-20a-5p ; hsa-let-7e-5p ; hsa-mir-124-3p ; hsa-mir-130b-3p ; hsa-mir-106a-5p ; hsa-mir-106b-5p ; hsa-mir-874-3p ; hsa-mir-4516 ; hsa-mir-17-5p ; hsa-mir-200a-3p ; hsa-mir-544a ; hsa-mir-181a-5p ; hsa-mir-1234-3p ; hsa-mir-1181 ; hsa-mir-6878-5p ; hsa-mir-5681a ; hsa-mir-6837-5p ; hsa-mir-4685-5p ; hsa-mir-7113-5p ; hsa-mir-6754-5p ; hsa-mir-4270 ; hsa-mir-4441 ; hsa-mir-922 ; hsa-mir-6760-5p ; hsa-mir-1288-5p ; hsa-mir-6871-3p ; hsa-mir-6809-3p ; hsa-mir-6833-3p ; hsa-mir-4768-5p ; hsa-mir-1178-3p ; hsa-mir-7158-5p ; hsa-mir-4684-5p ; hsa-mir-138-2-3p ; hsa-mir-371b-3p ; hsa-mir-548n ; hsa-mir-6875-3p ; hsa-mir-5581-3p ; hsa-mir-4778-3p ; hsa-mir-7110-3p ; hsa-mir-6845-3p ; hsa-mir-877-3p ; hsa-mir-618 ; hsa-mir-6807-5p ; hsa-mir-4720-3p ; hsa-mir-6762-3p ; hsa-mir-4804-3p ; hsa-mir-6872-3p ; hsa-mir-7151-3p ; hsa-mir-5095 ; hsa-mir-365b-5p ; hsa-mir-365a-5p ; hsa-mir-8052 ; hsa-mir-3199 ; hsa-mir-6789-3p ; hsa-mir-500b-3p ; hsa-mir-4438 ; hsa-mir-519d-3p ; hsa-mir-520c-3p ; hsa-mir-125a-5p ; hsa-mir-21-3p ; hsa-mir-519a-3p ; hsa-mir-148a-3p ; hsa-mir-223-3p ; hsa-let-7c-5p ; hsa-mir-29b-1-5p ; hsa-mir-23a-3p ; hsa-mir-323a-3p ; hsa-mir-375 ; hsa-mir-124-5p ; hsa-mir-29b-3p ; hsa-let-7a-5p ; hsa-mir-340-5p ; hsa-mir-410-5p
Nearest miRNA
hsa-mir-1180/Upstream/847214; hsa-mir-10226/Downstream/130342;
Nearest CpG islands
None/Target, chr17-CpG: 26/Upstream/51502, chr17-CpG: 87/Downstream/23388
Nearest cancer related gene
STAT3(OG, No orient, 0)
Upstream sequence
CAGGCTGCCAAACTTTTCAAAAGAAAAACAGTGGTAGGTTGAGCAAGCACATTGTCATGTCAGATTTTCCAGGCTCGAGGGCCACTGAAGGGAGAAGAGC
Downstream sequence
GAGTAGCTGGAAAAAACCTGTGGGTACTGTTATCTTTGGCCAAAGCTCAAATAAAAGAATCACAAAAACATCCACTGATCTAAAATGCTATGTAAGTCAT
Reference
Tu, T., et al. Hepatitis B Virus DNA Integration Occurs Early in the Viral Life Cycle in an In Vitro Infection Model via Sodium Taurocholate Cotransporting Polypeptide-Dependent Uptake of Enveloped Virus Particles. J Virol ,2018,92(11).