Expression analysis of TCGA samples
Basic Information
VIS ID
TVIS10015340
Fusion event
HBV-CDK15 integration
Validated
No
Detection method
NGS
Data source
Curated
Sample type
Disease
Hepatocellular carcinoma (HCC)
Quality evaluation
Normal
Reported year
2013
PubMed ID
Virus Sequence
Virus name
HBV
Reference genome
Not given
Region type
HBVgp3_Xprotein
Start
1503
Host Sequence
Chromosome
chr2
Cytoband
q33.1
Reference genome
End
202709075/201844352 (Hg38)
Location type
Intronic
Fragile sites / regions
Target gene
miRNAs that regulate target gene
hsa-mir-574-5p ; hsa-mir-147a ; hsa-mir-6734-5p ; hsa-mir-1226-5p ; hsa-mir-6834-5p ; hsa-mir-6867-5p ; hsa-mir-644a ; hsa-mir-3911 ; hsa-mir-3650 ; hsa-mir-4455 ; hsa-mir-6747-5p ; hsa-mir-6738-5p ; hsa-mir-5194 ; hsa-mir-1914-3p ; hsa-mir-423-5p ; hsa-mir-3184-5p ; hsa-mir-6782-5p ; hsa-mir-876-3p ; hsa-mir-323a-5p
Nearest miRNA
hsa-mir-10b/Upstream/12711241; hsa-mir-1244-1/Downstream/4938882;
Nearest CpG islands
None/Target, chr2-CpG: 135/Upstream/62920, chr2-CpG: 334/Downstream/188311
Upstream sequence
ctccaaaacaaaatggtctgaggcctttcaagaaagtgcatgtggcgaagtcatggggggcagggtggagaccatttggtggtgcccactaactaggttt
Downstream sequence
ctcagttggcttatctcttagtggaccattgctagcaaccagggtgtttttaagcatttgacagttttccatcacttttatttgccttcatatattgttt
Reference
Khoury, J. D., et al. Landscape of DNA virus associations across human malignant cancers: analysis of 3,775 cases using RNA-Seq. J Virol,2013, 87(16): 8916-8926.