Expression analysis of TCGA samples
Basic Information
VIS ID
TVIS10006482
Fusion event
HBV-STARD13 integration
Validated
Yes
Detection method
invPCR +Sequencing
Data source
Curated
Sample type
Disease
Hepatocellular carcinoma (HCC)
Quality evaluation
Normal
Reported year
2016
PubMed ID
Virus Sequence
Virus name
HBV
Reference genome
Host Sequence
Chromosome
chr13
Cytoband
q13.2
Reference genome
Start
End
33533086 (Hg38)
Location type
Intron
Target gene
miRNAs that regulate target gene
hsa-mir-125b-5p ; hsa-mir-122-5p ; hsa-mir-4452 ; hsa-mir-3658 ; hsa-mir-1231 ; hsa-mir-183-3p ; hsa-mir-516b-5p ; hsa-mir-4276 ; hsa-mir-4653-3p ; hsa-mir-219a-1-3p ; hsa-mir-570-3p ; hsa-mir-3591-3p ; hsa-mir-21-3p ; hsa-mir-148b-3p ; hsa-mir-152-3p ; hsa-mir-148a-3p ; hsa-mir-301b-3p ; hsa-mir-301a-3p ; hsa-mir-454-3p ; hsa-mir-3666 ; hsa-mir-130b-3p ; hsa-mir-130a-3p ; hsa-mir-4295 ; hsa-mir-9-5p
Nearest miRNA
hsa-mir-2276/Upstream/9370582; hsa-mir-1267/Downstream/6130948;
Nearest CpG islands
None/Target, chr13-CpG: 551/Upstream/182442, chr13-CpG: 66/Downstream/9334
Nearest cancer related gene
STARD13(TSG, No orient, 0)
Upstream sequence
CAGGTGAGGCAAACATATCAGTCACCCATGGCTAAATGTTGGCTTAAGTCCTAAGTGGCCAGTGGGAGAAAGGCCAATCCGAGAATTGTGTCACTGGAGA
Downstream sequence
TTCCAGGCAGAGGAACATAAAGAGGTACTTTTAGTGTCAATCAAAGCCCCAAGAATGCCAGTTCCAGATTGTCAGAGTAGTGACCATGTAAACCTGGGTC
Reference
Mason, W. S., et al. HBV DNA Integration and Clonal Hepatocyte Expansion in Chronic Hepatitis B Patients Considered Immune Tolerant. Gastroenterology,2016, 151(5): 986-998 e984.