Expression analysis of TCGA samples
Basic Information
VIS ID
TVIS10014998
Fusion event
HBV-CDYL integration
Validated
No
Detection method
WGS
Data source
Curated
Sample type
Disease
Hepatocellular carcinoma (HCC)
Quality evaluation
Normal
Reported year
2012
PubMed ID
Virus Sequence
Virus name
HBV
Reference genome
Region type
HBVgp3 X protein;HBVgp4 precore/core protein
Start
1827
Orient
+
Integrated sequence
AAGACTGGGAGGAGTTGGGGGAGGAGATTAGGTTAAAGGTCTTTGTACTAGGAGGCTGTAGGCATAAATTGGTCTGCGCACCAGCACCATGCAACTTTTT| |CACCTCTGCCTAATCATCTCTTGTTCATGTCCTACTGTTCAAGCCTCCAAGCTGTGCCTTGGGTGGCTTTGGGGCATGGACATCGACCCTTATAAAGAAT
Host Sequence
Chromosome
chr6
Cytoband
p25.1
Reference genome
Start
End
4951683/4951449 (Hg38)
Orient
-
Location type
Intronic
Fragile sites / regions
Target gene
miRNAs that regulate target gene
Nearest miRNA
hsa-mir-4645/Upstream/2097342; hsa-mir-10398/Downstream/196784;
Nearest CpG islands
None/Target, chr6-CpG: 120/Upstream/174133, chr6-CpG: 41/Downstream/52302
Upstream sequence
TATTTGCTCTCCTCTTAACTCTGCAGCTCAGTCCTGCTAGGTGAGGATGGGGGTGGGCAACTGTGACAAGGAGTCTTTTTCTGGCTGAACAGAAAATGAC
Downstream sequence
GTGTCATGTATTAAAAAATAAAGTGATCTAGAATCCAGGACAAGGTTAAAATTAATTTCATATATACACATATATATTCTTTTAAAGAAAACCTAATGTT
Reference
Sung, W. K., et al. Genome-wide survey of recurrent HBV integration in hepatocellular carcinoma. Nat Genet,2012, 44(7): 765-769.