Expression analysis of TCGA samples
Basic Information
VIS ID
TVIS10013588
Fusion event
HBV-ATP6V1C1 integration
Validated
No
Detection method
NGS
Data source
Curated
Sample type
Disease
Hepatocellular carcinoma (HCC)
Quality evaluation
Normal
Reported year
2018
PubMed ID
Virus Sequence
Virus name
HBV
Reference genome
Region type
precore/core protein|Core and e antigen|
Start
2008
Orient
+
Integrated sequence
ATCGACCCTTATAAAGAATTTGGAGCTACTGTGGAGTTACTCTCGTTTTTGCCTTCTGACTTCTTTCCTTCAGTACGAGATCTTCTAGATACCGCCTCAG| |CTCTGTATCGGGAAGCCTTAGAGTCTCCTGAGCATTGTTCACCTCACCATACTGCACTCAGGCAAGCAATTCTTTGCTGGGGGGAACTAATGACTCTAGC
Host Sequence
Chromosome
chr8
Cytoband
q22.3
Reference genome
End
104034037/103021809 (Hg38)
Orient
-
Location type
Intronic
Fragile sites / regions
Target gene
miRNAs that regulate target gene
hsa-mir-155-5p ; hsa-mir-374b-5p ; hsa-mir-130b-3p ; hsa-mir-128-3p ; hsa-mir-1-3p ; hsa-mir-30a-5p ; hsa-mir-19b-3p ; hsa-mir-30c-5p ; hsa-mir-8063 ; hsa-mir-16-2-3p ; hsa-mir-130a-3p ; hsa-mir-195-3p ; hsa-mir-301a-3p ; hsa-mir-519c-3p ; hsa-mir-519b-3p ; hsa-mir-519a-3p ; hsa-mir-454-3p ; hsa-mir-301b-3p ; hsa-mir-1262 ; hsa-mir-4295 ; hsa-mir-3666 ; hsa-mir-4506 ; hsa-mir-4701-3p ; hsa-mir-6736-5p ; hsa-mir-6502-3p ; hsa-mir-6512-5p ; hsa-mir-520e ; hsa-mir-520d-3p ; hsa-mir-520c-3p ; hsa-mir-520b ; hsa-mir-520a-3p ; hsa-mir-373-3p ; hsa-mir-372-3p ; hsa-mir-302e ; hsa-mir-302d-3p ; hsa-mir-302c-3p ; hsa-mir-302b-3p ; hsa-mir-302a-3p ; hsa-mir-7161-5p ; hsa-mir-548u ; hsa-mir-5187-3p ; hsa-mir-4715-3p ; hsa-mir-3064-3p ; hsa-mir-6881-3p ; hsa-mir-877-3p ; hsa-mir-4317 ; hsa-mir-4668-3p ; hsa-mir-548e-5p
Nearest miRNA
hsa-mir-12123/Upstream/896294; hsa-mir-10400/Downstream/132805;
Nearest CpG islands
None/Target, chr8-CpG: 109/Upstream/473, chr8-CpG: 84/Downstream/118689
Upstream sequence
ttcacagccaaattctaccagaggtacaagaaggagctggtaccattccttctgaaactattccaatcaacagaaaaagagggaatcctccctaactcat
Downstream sequence
cagaacaaaacaaaacaaaCCCCTAGAAAAGAACTTGGTGAGAGTCACATAAGGCATATTGAATCACTTGAGAAACAGGAGTAAGGGGGAAGCTAGTATT
Reference
Yang, L., et al. Molecular Characterization of HBV DNA Integration in Patients with Hepatitis and Hepatocellular Carcinoma. J Cancer ,2018,9(18): 3225-3235.