Expression analysis of TCGA samples
Basic Information
VIS ID
TVIS10015008
Fusion event
HBV-LRFN2 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
Start
1772
Orient
-
Integrated sequence
CTCTCAGCAATGTCAACGACCGACCTTGAGGCATACTTCAAAGACTGTTTGTTTAAAGACTGGGAGGAGTTGGGGGAGGAGATTAGGTTAAAGGTCTTTG| |TACTAGGAGGCTGTAGGCATAAATTGGTCTGCGCACCAGCACCATGCAACTTTTTCACCTCTGCCTAATCATCTCTTGTTCATGTCCTACTGTTCAAGCC
Host Sequence
Chromosome
chr6
Cytoband
p21.2
Reference genome
Start
End
40366163/40398424 (Hg38)
Orient
+
Location type
Intronic
Fragile sites / regions
Target gene
Nearest miRNA
hsa-mir-1236/Upstream/1324043; hsa-mir-10398/Downstream/1200299;
Nearest CpG islands
None/Target, chr6-CpG: 120/Upstream/5725, chr6-CpG: 132/Downstream/188432
Upstream sequence
gtctgcagtgagccaagatcacaccactgtagtccagcctgggcaacagagcaagactccatctcaaaaaTATTACATTAAAAAAAGTAAAATTTGTAAA
Downstream sequence
ctgcatggctgaaccaaaccgaaagccagagttcacaggcacatgcaggtcaggcttccagagtgcagggcaaggcggaggaggggagagtggatcccga
Reference
Sung, W. K., et al. Genome-wide survey of recurrent HBV integration in hepatocellular carcinoma. Nat Genet,2012, 44(7): 765-769.