Expression analysis of TCGA samples
Basic Information
VIS ID
TVIS10016340
Fusion event
HBV-TTC37 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
789
End
870
Orient
-
Integrated sequence
TTTTTACCGCTGTTACCAATTTTCTTTTGTCTTTGGGTATACATTTAAACCCTAACAAAACAAAGAGATGGGGTTACTCTCT
Host Sequence
Chromosome
chr5
Cytoband
q15
Reference genome
Start
End
94817693/95481989 (Hg38)
Orient
+
Location type
Intronic
Fragile sites / regions
Target gene
miRNAs that regulate target gene
hsa-mir-421 ; hsa-mir-155-5p ; hsa-mir-1-3p ; hsa-mir-186-3p ; hsa-mir-92a-3p ; hsa-mir-127-5p ; hsa-mir-544a ; hsa-mir-377-5p ; hsa-mir-4482-3p ; hsa-mir-5701 ; hsa-mir-582-5p ; hsa-mir-101-3p ; hsa-mir-6892-5p ; hsa-mir-545-5p ; hsa-mir-6504-3p ; hsa-mir-144-3p ; hsa-mir-4475 ; hsa-mir-3922-3p ; hsa-mir-3176 ; hsa-mir-3190-5p ; hsa-mir-641 ; hsa-mir-3617-5p
Nearest miRNA
hsa-mir-10397/Upstream/1861079; hsa-mir-103a-1/Downstream/597149;
Nearest CpG islands
None/Target, chr5-CpG: 87/Upstream/196450, chr5-CpG: 61/Downstream/72714
Upstream sequence
taccattgactacccattttttccaggctgggcagctcataatggagccagacagtactgcagaaaaaaattatatgttttctctttagattgtcagggt
Downstream sequence
TTGTGCATTTGTCACTGTGGATAACCAGAGCCACCTGAAAGAGCAGATGATCTGTTGATTCAAGCATCAATCCTGAAAATAATTATTTCTAAAAGCACTA
Target sequence
CTATATCAAAAAGCCCTTTTGATACTTTCTCTGGGGCACAGAGGaaatataataaattgtataaaataattatGTGCTTCCTTGTATTTTAATATCAATAAGAACAAAGCACACAGTGATCA
Reference
Jiang, S., et al. Re-evaluation of the carcinogenic significance of hepatitis B virus integration in hepatocarcinogenesis. PLoS One ,2012, 7(9): e40363.