Expression analysis of TCGA samples
Basic Information
VIS ID
TVIS10018434
Fusion event
HBV-FAM49A integration
Validated
No
Detection method
VirusFinder
Data source
Curated
Sample type
Disease
Hepatocellular carcinoma (HCC)
Quality evaluation
Normal
Reported year
2017
PubMed ID
Virus Sequence
Virus name
HBV
Reference genome
Start
1792
Integrated sequence
CGACCTTGAGGCATACTTCAAAGACTGTTTGTTTAAAGACTGGGAGGAGTTGGGGGAGGAGATTAGGTTAAAGGTCTTTGTACTAGGAGGCTGTAGGCAT| |AAATTGGTCTGCGCACCAGCACCATGCAACTTTTTCACCTCTGCCTAATCATCTCTTGTTCATGTCCTACTGTTCAAGCCTCCAAGCTGTGCCTTGGGTG
Host Sequence
Chromosome
chr2
Cytoband
p24.2
Reference genome
Start
End
16733075/16551807 (Hg38)
Location type
Exon1
Target gene
miRNAs that regulate target gene
hsa-mir-335-5p ; hsa-mir-8485 ; hsa-mir-548t-3p ; hsa-mir-548ap-3p ; hsa-mir-548aa ; hsa-mir-548z ; hsa-mir-548h-3p ; hsa-mir-548d-3p ; hsa-mir-548bb-3p ; hsa-mir-548ac ; hsa-mir-107 ; hsa-mir-103a-3p ; hsa-mir-2110 ; hsa-mir-25-3p ; hsa-mir-3150a-3p ; hsa-mir-32-5p ; hsa-mir-363-3p ; hsa-mir-367-3p ; hsa-mir-4271 ; hsa-mir-450a-2-3p ; hsa-mir-4725-3p ; hsa-mir-621 ; hsa-mir-6763-5p ; hsa-mir-6780b-5p ; hsa-mir-6810-5p ; hsa-mir-6857-5p ; hsa-mir-92a-1-5p ; hsa-mir-92a-3p ; hsa-mir-92b-3p
Nearest miRNA
hsa-mir-3125/Upstream/3814363; hsa-mir-10b/Downstream/2796622;
Nearest CpG islands
None/Target, chr2-CpG: 135/Upstream/43253, chr2-CpG: 29/Downstream/987081
Upstream sequence
CCTGTAATATCTCACTGTGACAGCAGGAGCATCCCAGCTGATCAGTAGGCTGGTGGGGGTCGCAGCAACAACTTCCAGGTCCCTCGGAACATCAGAAACT
Downstream sequence
taaacacatttctcaagatcacattatgaatcattagtaaggccaggagtaaattcaggtGCACCAGGGCTTTTATATTGCAACAAGCTAGCAACGGGGT
Reference
Yoo, S., et al. A pilot systematic genomic comparison of recurrence risks of hepatitis B virus-associated hepatocellular carcinoma with low- and high-degree liver fibrosis. BMC Med ,2017, 15(1): 214.