Expression analysis of TCGA samples
Basic Information
VIS ID
TVIS10020300
Fusion event
HBV-HS6ST3 integration
Validated
No
Detection method
VirusScan
Data source
Curated
Sample type
Disease
Hepatocellular carcinoma (HCC)
Quality evaluation
Good
Reported year
2016
PubMed ID
Virus Sequence
Virus name
HBV
Reference genome
Start
1183
End
2279
Orient
+
Integrated sequence
TTGCTGACGCAACCCCCACGGGTTGGGGCTTGGCCATAGGCCATCGGCGCATGCGTGGAACCTTTGTGGCTCCTCTGCCGATCCATACTGCGGAACTCCTAGCAGCTTGTTTTGCTCGCAGCCGGTCTGGAGCGAAACTTATCGGAACCGACAACTCAGTTGTCCTCTCTCGGAAATACACCTCCTTTCCATGGCTGCTAGGCTGTGCTGCCAACTGGATCCTGCGCGGGACGTCCTTTGTCTACGTCCCGTCGG
Host Sequence
Chromosome
chr13
Cytoband
q32.1
Reference genome
Start
End
97435830/96783576 (Hg38)
Orient
+
Location type
Intronic
Fragile sites / regions
Target gene
miRNAs that regulate target gene
hsa-mir-335-5p ; hsa-mir-5589-3p ; hsa-mir-6856-5p ; hsa-mir-6758-5p ; hsa-mir-574-5p ; hsa-mir-5010-3p ; hsa-mir-147a ; hsa-mir-6818-5p ; hsa-mir-592 ; hsa-mir-513a-5p ; hsa-mir-8068 ; hsa-mir-6867-5p ; hsa-mir-597-5p ; hsa-mir-486-3p ; hsa-mir-6721-5p ; hsa-mir-4445-5p ; hsa-mir-6743-5p ; hsa-mir-4688 ; hsa-mir-6767-3p ; hsa-mir-362-3p ; hsa-mir-329-3p ; hsa-mir-8485
Nearest miRNA
hsa-mir-1297/Upstream/355236; hsa-mir-1267/Downstream/1424948;
Nearest CpG islands
Upstream sequence
GTAACAAAAGTCATCACTTAATGATGTGTTCACCATGGCCAGGTGCTTTATCTGTAGGAGCTCAGGTTATCCCAAGTATCTCAGGTTAAACTGGGGCATA
Downstream sequence
TTTTTTTCTGCCTTATGTAAGGAGGAAAATGTCTTCCAGGGGCTTGGTCATTGACACCCTCATTTATGGACAGGATGGAGCCACTTCAGGTTTGTTAGGC
Target sequence
TTGTGATACAGGGAAATGGAGCTGGCGGGTTCAGTTGGCAAATGTGATGCTCTTTCATGATCTTAGTGCTGTCCCATTTATTTTGCCCTTAAGTTCCCCGTGCCTGGCTTTTTCATTGCTTATCCTTGCCCTGAGATAAAATTATCCATACTAAGATTGTAGGTTGCCTGTACAAGGAAAAGTTTGATTTTACATAGTCCTTTAACTCCAATGGTGAGCAGAGAGGGAGGAGAACCTTTCTGCCCACCCAGCAGG
Reference
Cao, S., et al.Divergent viral presentation among human tumors and adjacent normal tissues. Sci Rep,2016, 6: 28294.