Expression analysis of TCGA samples
Basic Information
VIS ID
TVIS10015647
Fusion event
HBV-COL18A1 integration
Validated
No
Detection method
MAPS
Data source
Curated
Sample type
Disease
Hepatocellular carcinoma (HCC)
Quality evaluation
Perfect
Reported year
2012
PubMed ID
Virus Sequence
Virus name
HBV
Reference genome
AY800389.1;AY800390.1;AY800391.1;AY800392.1
Orient
-
Host Sequence
Chromosome
chr21
Cytoband
q22.3
Reference genome
Start
End
46927655/45507741 (Hg38)
Orient
-
Location type
Intronic
Target gene
miRNAs that regulate target gene
hsa-mir-877-3p ; hsa-mir-92a-3p ; hsa-mir-6749-5p ; hsa-mir-450a-1-3p ; hsa-mir-3977 ; hsa-mir-3157-5p ; hsa-mir-8059 ; hsa-mir-4471 ; hsa-mir-1292-5p ; hsa-mir-661 ; hsa-mir-27b-5p ; hsa-mir-7155-5p ; hsa-mir-6852-5p ; hsa-mir-4538 ; hsa-mir-4453 ; hsa-mir-1227-5p ; hsa-mir-1257 ; hsa-mir-125a-3p ; hsa-mir-3155a ; hsa-mir-3155b ; hsa-mir-3175 ; hsa-mir-3665 ; hsa-mir-4259 ; hsa-mir-4260 ; hsa-mir-4284 ; hsa-mir-4310 ; hsa-mir-4711-5p ; hsa-mir-4736 ; hsa-mir-484 ; hsa-mir-486-3p ; hsa-mir-513a-5p ; hsa-mir-513b-3p ; hsa-mir-5192 ; hsa-mir-571 ; hsa-mir-6721-5p ; hsa-mir-6731-5p ; hsa-mir-6798-5p ; hsa-mir-6815-3p ; hsa-mir-7157-5p ; hsa-mir-8085
Nearest miRNA
hsa-let-7c/Upstream/29415;
Nearest CpG islands
None/Target, chr21-CpG: 261/Upstream/9245, chr21-CpG: 76/Downstream/1570
Upstream sequence
GCTCACCATCAGCCCCTGCTGCAGAAACTGG
Junction sequence
GCTCACCATCAGCCCCTGCTGCAGAAACTGGTACAGCCTCCTAGTACAAAGACCTTTAACCTCATCTCCTCCCCCAACTCCTCCCACT
* Color:
Human Sequence
/
Virus Sequence
/
Overlapped sequence
/
Unknown sequence
Reference
Ding, D., et al. Recurrent targeted genes of hepatitis B virus in the liver cancer genomes identified by a next-generation sequencing-based approach. PLoS Genet ,2010,8(12): e1003065.