Expression analysis of TCGA samples
Basic Information
VIS ID
TVIS10006826
Fusion event
HBV-GAD1 integration
Validated
Yes
Detection method
Alu PCR and sequencing
Data source
Curated
Sample type
Disease
Hepatocellular carcinoma (HCC)
Quality evaluation
Good
Reported year
2015
PubMed ID
Virus Sequence
Virus name
HBV
Reference genome
Not given
Start
1820
Host Sequence
Chromosome
chr2
Cytoband
q31.1
Reference genome
Start
End
170846765 (Hg38)
Orient
+
Location type
Intronic 9
Fragile sites / regions
Target gene
Nearest miRNA
hsa-mir-128-1/Upstream/2263564; hsa-mir-10b/Downstream/4320868;
Nearest CpG islands
None/Target, chr2-CpG: 135/Upstream/22734, chr2-CpG: 92/Downstream/82199
Upstream sequence
TGGCACATCCAGCCTCAACAAACTCTATTAAACAAAAAAACTCACAGAACAGATGTATCCACAAGTCAGTGCCAGGTAGCTGTCAGGCCACTTACCAACA
Downstream sequence
gaggctgaggcaggaggatcccttgagcccaggaattcaagaccagcctgggcaacatagggtaacccacatctctgtaaaaaattttaaaaaatagcca
Target sequence
CATGGTTGTTTCAGTTACATTCTTATACCTCCTTCTCTAATTGTAGTTATTTGCTGGGGTCTTGGCACAGGAAGTGGATCTAAGTGTTGTAAAGACTGAGCAAGGAGCAGAGGTGGAGCTGAGCTTCACAAAAGCCTAAGAggcagggcatgggggctcgcacctgtaatcccagcactttgg
Reference
Zhang, X., et al. DNA methylation consistency implicates the primary tumor cell origin of recurrent hepatocellular carcinoma. Epigenomics,2015, 7(4): 581-592.