Expression analysis of TCGA samples
Basic Information
VIS ID
TVIS10010380
Fusion event
HBV-ABCC1 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
Polymerase|large S protein|middle S protein|
Start
26
Orient
+
Integrated sequence
AATTCCACAACCTTCCACCAAACTCT| |GCAAGATCCCAGAGTGAGAGGCCTGTATTTCCCTGCTGGTGGCTCCAGTTCAGGAACAGTAAACCCTGTTCTGACTACTGCCTCTCCCTTATCGTCAATC
Host Sequence
Chromosome
chr16
Cytoband
p13.11
Reference genome
Start
End
16134584/16040727 (Hg38)
Orient
-
Location type
Intronic
Fragile sites / regions
Target gene
miRNAs that regulate target gene
hsa-mir-345-5p ; hsa-mir-7-5p ; hsa-mir-134-5p ; hsa-mir-9-5p ; hsa-mir-1-3p ; hsa-mir-98-5p ; hsa-let-7b-5p ; hsa-mir-615-3p ; hsa-mir-339-5p ; hsa-mir-125b-5p ; hsa-mir-23b-3p ; hsa-mir-16-5p ; hsa-mir-1291 ; hsa-mir-3180-5p ; hsa-mir-524-5p ; hsa-mir-520d-5p ; hsa-mir-361-3p ; hsa-mir-1825 ; hsa-mir-548o-3p ; hsa-mir-1323 ; hsa-mir-5195-3p ; hsa-mir-5582-3p ; hsa-mir-145-5p ; hsa-mir-199a-5p ; hsa-mir-199b-5p ; hsa-mir-224-5p
Nearest miRNA
hsa-mir-1225/Upstream/397355; hsa-mir-11401/Downstream/259432;
Nearest CpG islands
None/Target, chr16-CpG: 29/Upstream/90657, chr16-CpG: 30/Downstream/182652
Upstream sequence
tttagggtacatgtgcacaatgtgcaggttagttacatatgtatagagacaggtctcactgtgttgcccaggctggtctccaagtcttggcttcaagcag
Downstream sequence
tcctcctgcctcagcctcccaaatagctgggattacaggtgtgagccaccacacccagcTGAGTTCTGGTTCATAACAACCCAGGCTGTCCTGGGGAAGG
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.