Expression analysis of TCGA samples
Basic Information
VIS ID
TVIS10016259
Fusion event
HBV-SEMA6D integration
Validated
No
Detection method
WGS
Data source
Curated
Sample type
Disease
Hepatocellular carcinoma (HCC)
Quality evaluation
Good
Reported year
2012
PubMed ID
Virus Sequence
Virus name
HBV
Reference genome
Start
855
End
890
Orient
+
Integrated sequence
GATGGGGTTACTCTCTAAATTTTATGGGTTATGTCA
Host Sequence
Chromosome
chr15
Cytoband
q21.1
Reference genome
Start
End
47831906/47539709 (Hg38)
Orient
+
Location type
Intronic
Target gene
miRNAs that regulate target gene
hsa-mir-23a-3p ; hsa-mir-23b-3p ; hsa-mir-130a-5p ; hsa-mir-23c ; hsa-mir-3662 ; hsa-mir-5196-5p ; hsa-mir-4747-5p ; hsa-mir-4506 ; hsa-mir-7-5p ; hsa-mir-5003-5p ; hsa-mir-8485 ; hsa-mir-3529-3p ; hsa-mir-589-3p ; hsa-mir-8068 ; hsa-mir-1225-5p ; hsa-mir-10b-3p ; hsa-mir-1278 ; hsa-mir-1911-5p ; hsa-mir-27a-3p ; hsa-mir-27b-3p ; hsa-mir-3182 ; hsa-mir-361-5p ; hsa-mir-3617-3p ; hsa-mir-374a-3p ; hsa-mir-4303 ; hsa-mir-4490 ; hsa-mir-452-5p ; hsa-mir-4659a-3p ; hsa-mir-4659b-3p ; hsa-mir-4676-3p ; hsa-mir-4682 ; hsa-mir-513a-5p ; hsa-mir-6736-3p ; hsa-mir-892c-3p ; hsa-mir-4433a-3p ; hsa-mir-4433b-3p ; hsa-mir-4496 ; hsa-mir-4722-5p ; hsa-mir-4793-5p ; hsa-mir-5196-3p ; hsa-mir-6165
Nearest miRNA
hsa-mir-10393/Upstream/2106545; hsa-mir-11181/Downstream/1629361;
Nearest CpG islands
Upstream sequence
ATTATAGTAGTTTTGTGTGGGATTTGATATCTATACTTTCTTGCTCATTTTTATGTGAAATTAGTTTTTCTGAATTTTCAGAAAGTTATGTAGTTCAGGG
Downstream sequence
TAAATATACAAACAGGAGCAAAGAAAGGAACTACAGCTCTTGATTATTTGTGCTTAGCACTGTGGGAAGCACAGATACAACTGCAAAGAAATATAGCCAA
Target sequence
cgcctcccaaCTGGCTGAGTCTTATACCAAGGAAA
Reference
Jiang, S., et al. Re-evaluation of the carcinogenic significance of hepatitis B virus integration in hepatocarcinogenesis. PLoS One ,2012, 7(9): e40363.