Expression analysis of TCGA samples
Basic Information
VIS ID
TVIS10014997
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
HBVgp1 Polymerase;HBVgp2 pre-S2/S;HBVgp2
Start
704
Orient
-
Integrated sequence
TTCCCATCCCATCATCCTGGGCTTTCGGAAAATTCCTATGGGAGTGGGCCTCAGCCCGTTTCTCCTGGCTCAGTTTACTAGTGCCATTTGTTCAGTGGTT| |CGTAGGGCTTTCCCCCACTGTTTGGCTTTCAGTTATATGGATGATGTGGTATTGGGGGCCAAGTCTGTACAGCATCTTGAGTCCCTTTTTACCGCTGTTA
Host Sequence
Chromosome
chr6
Cytoband
p25.1
Reference genome
Start
End
4952218/4951984 (Hg38)
Orient
+
Location type
Intronic
Fragile sites / regions
Target gene
miRNAs that regulate target gene
Nearest miRNA
hsa-mir-4645/Upstream/2097877; hsa-mir-10398/Downstream/196249;
Nearest CpG islands
None/Target, chr6-CpG: 120/Upstream/174668, chr6-CpG: 41/Downstream/51767
Upstream sequence
tgccccgataaaccataccagaattctctttgaatttccatgttatgtgagtaaatgaaatccttaattgtttgtgtcagattgagttgaatttcctggt
Downstream sequence
TTTATTGAGTCCCTGTAATTCTGTAGTAGGTTGTAAAATAAGACACTTTTTGCTTTCCTTTTTAAGAAAAAAATCATCAGCCCGATAGATTACTTTCCCA
Reference
Sung, W. K., et al. Genome-wide survey of recurrent HBV integration in hepatocellular carcinoma. Nat Genet,2012, 44(7): 765-769.