Expression analysis of TCGA samples
Basic Information
VIS ID
TVIS10015072
Fusion event
HBV-PLCL1 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
159
Orient
+
Integrated sequence
TGCTGGTGGCTCCAGTTCAGGAACAGTAAACCCTGTTCTGACTACTGCCTCTCCCTTATCGTCAATCTTCTCGAGGATTGGGGACCCTGCGCTGAACATG| |GAGAACATCACATCAGGATTCCTAGGACCCCTTCTCGTGTTACAGGCGGGGTTTTTCTTGTTGACAAGAATCCTCACAATACCGCAGAGTCTAGACTCGT
Host Sequence
Chromosome
chr2
Cytoband
q33.1
Reference genome
End
198804063/197939339 (Hg38)
Orient
-
Location type
Intronic
Fragile sites / regions
Target gene
miRNAs that regulate target gene
hsa-mir-599 ; hsa-mir-4659b-3p ; hsa-mir-4659a-3p ; hsa-mir-6875-3p ; hsa-mir-6844 ; hsa-mir-4775 ; hsa-mir-4778-3p ; hsa-mir-4735-5p ; hsa-mir-3692-3p ; hsa-mir-1236-3p ; hsa-mir-603 ; hsa-mir-8485 ; hsa-mir-3064-3p ; hsa-mir-6809-3p ; hsa-mir-6833-3p ; hsa-mir-4768-5p ; hsa-mir-4753-3p ; hsa-mir-130b-5p ; hsa-mir-4727-5p ; hsa-mir-6817-5p ; hsa-mir-4769-3p ; hsa-mir-140-3p ; hsa-mir-6728-3p ; hsa-mir-552-5p ; hsa-mir-302c-5p ; hsa-mir-6817-3p ; hsa-mir-7110-3p ; hsa-mir-6873-3p ; hsa-mir-186-3p ; hsa-mir-4714-3p ; hsa-mir-4272 ; hsa-mir-3149 ; hsa-mir-374a-3p ; hsa-mir-361-5p ; hsa-mir-4328 ; hsa-mir-5094 ; hsa-mir-6768-5p
Nearest miRNA
hsa-mir-10b/Upstream/8806228; hsa-mir-1244-1/Downstream/8843895;
Nearest CpG islands
Upstream sequence
GGTGAAATCAGATTTTAGGATACCTACAGcagtgtctcttaaccctgaatgcacattagaatgacctgggagcatttaaaaagcccagatccagggttgc
Downstream sequence
ctccgcaattacaaaatcagaattctgggaatgggacctgtatttgttttccatggctgccataacaaagtaccacagtctgggtgacttaaacgacaga
Reference
Sung, W. K., et al. Genome-wide survey of recurrent HBV integration in hepatocellular carcinoma. Nat Genet,2012, 44(7): 765-769.