Expression analysis of TCGA samples
Basic Information
VIS ID
TVIS10006109
Fusion event
HBV-LHPP 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
1802
Orient
+
Integrated sequence
ATACTTCAAAGACTGTTTGTTTAAGGACTGGGAGGAGTTGGGGGAGGAGATTAGGTTAAAGGTCTTTGTACTAGGAGGCTGTAGGCATAAATTGGTCTGT| |TCACCAGCACCATGCAACTTTTTCACCTCTGCCTAATCATCTCATGTTCATGTCCTACTGTTCAAGCCTCCAAGCTGTGCCTTGGGTGGCTTTGGGGCAT
Host Sequence
Chromosome
chr10
Cytoband
q26.13
Reference genome
End
126177636/124489067 (Hg38)
Orient
-
Location type
Intron
Target gene
miRNAs that regulate target gene
hsa-mir-335-5p ; hsa-mir-3650 ; hsa-mir-4763-3p ; hsa-mir-1207-5p ; hsa-mir-5093 ; hsa-mir-1827 ; hsa-mir-4649-3p ; hsa-mir-1247-3p ; hsa-mir-940 ; hsa-mir-6893-5p ; hsa-mir-6808-5p ; hsa-mir-522-3p ; hsa-mir-224-3p ; hsa-mir-665 ; hsa-mir-7160-5p ; hsa-mir-6884-5p ; hsa-mir-485-5p ; hsa-mir-5584-5p ; hsa-mir-4478 ; hsa-mir-4419b ; hsa-mir-3929 ; hsa-mir-1273g-3p ; hsa-mir-1825 ; hsa-mir-3130-3p ; hsa-mir-3160-3p ; hsa-mir-3187-3p ; hsa-mir-4252 ; hsa-mir-4435 ; hsa-mir-4487 ; hsa-mir-4537 ; hsa-mir-455-3p ; hsa-mir-4701-5p ; hsa-mir-5186 ; hsa-mir-548s ; hsa-mir-558 ; hsa-mir-588 ; hsa-mir-6499-3p ; hsa-mir-6516-5p
Nearest miRNA
hsa-mir-107/Upstream/2072000; hsa-mir-202/Downstream/543716;
Nearest CpG islands
None/Target, chr10-CpG: 68/Upstream/26896, chr10-CpG: 17/Downstream/100662
Upstream sequence
AATTAGTAAAACATAGGCTTGAGGGCCTACCCAGTCTGGGCACCGACAGTCTCTGGCCACAGATCACTGTCTCTGTGAAGTTGTGATTTTGTGATCAGTG
Downstream sequence
TTTTGTCTGAGCCTTTAGCACATGCCTTGCCATCTCTTTCTTAAACAAAACAGTGTTGGTTATTTTTAACAtttttcttacactgagatagcacatgttc
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).