Expression analysis of TCGA samples
Basic Information
VIS ID
TVIS10015980
Fusion event
HBV-JMJD1C integration
Validated
Yes
Detection method
Alu PCR and sequencing
Data source
Curated
Sample type
Disease
Hepatocellular carcinoma (HCC)
Quality evaluation
Normal
Reported year
2012
PubMed ID
Virus Sequence
Virus name
HBV
Reference genome
Not given
Start
1782
Orient
+
Host Sequence
Chromosome
chr10
Cytoband
q21.3
Reference genome
Start
End
65030193/63270433 (Hg38)
Orient
-
Location type
Intron
Fragile sites / regions
Target gene
miRNAs that regulate target gene
hsa-mir-326 ; hsa-let-7e-5p ; hsa-mir-374a-5p ; hsa-mir-718 ; hsa-mir-587 ; hsa-mir-6084 ; hsa-mir-5581-5p ; hsa-mir-4297 ; hsa-mir-145-3p ; hsa-mir-6880-3p ; hsa-mir-4485-5p ; hsa-mir-2681-5p ; hsa-mir-5579-3p ; hsa-mir-889-3p ; hsa-mir-208b-5p ; hsa-mir-208a-5p ; hsa-mir-590-3p ; hsa-mir-513c-3p ; hsa-mir-513a-3p ; hsa-mir-3606-3p ; hsa-mir-548t-5p ; hsa-mir-548az-5p ; hsa-mir-548n ; hsa-mir-23c ; hsa-mir-130a-5p ; hsa-mir-23a-3p ; hsa-mir-23b-3p ; hsa-mir-8081 ; hsa-mir-627-5p ; hsa-mir-937-5p ; hsa-mir-627-3p ; hsa-mir-205-5p ; hsa-mir-6500-3p ; hsa-mir-3614-5p ; hsa-mir-6875-3p ; hsa-mir-670-3p ; hsa-mir-4762-5p ; hsa-mir-513b-3p ; hsa-mir-3662
Nearest miRNA
hsa-mir-1265/Upstream/5965874; hsa-mir-107/Downstream/102524;
Nearest CpG islands
Upstream sequence
GACACTGGAGAGACACTTAGGGGCATGGGCCAGCTTTGTAAGTGGTGTTATATCCTGGCTGCAGTAAGGGTAAGAGTCACAGCAGCTATAGGTTAAGAAG
Downstream sequence
CAGGCAGTGATATAGAAATAAGAGCCAAAGGTGGAGGGTGTTTTTTCTTTTTTCTTTTCTTGTTGTTCTATGTCTTCTATTAATTTGGCTGTGAAAGGGG
Reference
Jiang, S., et al. Re-evaluation of the carcinogenic significance of hepatitis B virus integration in hepatocarcinogenesis. PLoS One ,2012, 7(9): e40363.