Expression analysis of TCGA samples
Basic Information
VIS ID
TVIS10016480
Fusion event
HBV-ALPI integration
Validated
No
Detection method
WGS
Data source
Curated
Sample type
Disease
Hepatocellular carcinoma (HCC)
Quality evaluation
Good
Reported year
2012
PubMed ID
Virus Sequence
Virus name
HBV
Reference genome
Start
2045
End
2080
Orient
-
Integrated sequence
TTCACCTCACCATACTGCACTCAGGCAAGCAATTCT
Host Sequence
Chromosome
chr2
Cytoband
q37.1
Reference genome
End
233324277/232459567 (Hg38)
Orient
+
Location type
Intronic
Target gene
miRNAs that regulate target gene
hsa-mir-148b-3p ; hsa-mir-26b-5p ; hsa-mir-7109-5p ; hsa-mir-4758-5p ; hsa-mir-1238-5p ; hsa-mir-6820-3p ; hsa-mir-3164 ; hsa-mir-3118 ; hsa-mir-134-5p ; hsa-mir-6885-5p ; hsa-mir-328-5p ; hsa-mir-6887-5p ; hsa-mir-6795-5p ; hsa-mir-486-3p ; hsa-mir-6721-5p ; hsa-mir-4687-3p ; hsa-mir-7974 ; hsa-mir-613 ; hsa-mir-206 ; hsa-mir-1-3p ; hsa-mir-6828-5p ; hsa-mir-873-5p ; hsa-mir-4745-5p ; hsa-mir-4481 ; hsa-mir-637 ; hsa-mir-6128 ; hsa-mir-4682 ; hsa-mir-3200-5p
Nearest miRNA
hsa-mir-10b/Upstream/286785; hsa-mir-149/Downstream/90907;
Nearest CpG islands
None/Target, chr2-CpG: 135/Upstream/306, chr2-CpG: 286/Downstream/26001
Upstream sequence
caaattccagattttcattgctgatatataagaaagcaactgacttttgtcaattaaccATTTACCAAGAAACAGGCTTTTTATGCTGTATTTAGCACCT
Downstream sequence
GCGTGCCCCACCGTCTTAGCTTCAATCCTGGCAGCACCTGGTAGACCCAAGGACTTGGGTGGATCAGGACACCTGAAGAAGAGAAGCTTCCGGCAACCCT
Target sequence
ACGTCCCCCATCGTGGGACACGACACACCCAGACC
Reference
Jiang, S., et al. Re-evaluation of the carcinogenic significance of hepatitis B virus integration in hepatocarcinogenesis. PLoS One ,2012, 7(9): e40363.