Expression analysis of TCGA samples
Basic Information
VIS ID
TVIS10018830
Fusion event
HBV-RALGAPB 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
1812
Integrated sequence
AAGACTGTTTGTTTAAAGACTGGGAGGAGTTGGGGGAGGAGATTAGGTTAAAGGTCTTTGTACTAGGAGGCTGTAGGCATAAATTGGTCTGCGCACCAGC| |ACCATGCAACTTTTTCACCTCTGCCTAATCATCTCTTGTTCATGTCCTACTGTTCAAGCCTCCAAGCTGTGCCTTGGGTGGCTTTGGGGCATGGACATCG
Host Sequence
Chromosome
chr20
Cytoband
q11.23
Reference genome
Start
End
37108206/38479563 (Hg38)
Location type
Intron1
Target gene
miRNAs that regulate target gene
hsa-let-7d-5p ; hsa-mir-421 ; hsa-mir-615-3p ; hsa-mir-342-3p ; hsa-mir-328-3p ; hsa-let-7b-5p ; hsa-mir-381-5p ; hsa-mir-503-5p ; hsa-mir-562 ; hsa-mir-548n ; hsa-mir-4524a-5p ; hsa-mir-4524b-5p ; hsa-mir-3158-5p ; hsa-mir-298 ; hsa-mir-6752-3p ; hsa-mir-646 ; hsa-mir-6838-5p ; hsa-mir-497-5p ; hsa-mir-424-5p ; hsa-mir-195-5p ; hsa-mir-16-5p ; hsa-mir-15b-5p ; hsa-mir-15a-5p ; hsa-mir-6867-5p ; hsa-mir-6797-3p ; hsa-mir-6076 ; hsa-mir-574-5p ; hsa-mir-496 ; hsa-mir-4540 ; hsa-mir-6723-5p ; hsa-mir-4711-3p ; hsa-mir-29a-5p ; hsa-mir-3920 ; hsa-mir-607 ; hsa-mir-6838-3p
Nearest miRNA
hsa-mir-103a-2/Upstream/3025466; hsa-mir-1-1/Downstream/37000;
Nearest CpG islands
None/Target, chr20-CpG: 39/Upstream/6464, chr20-CpG: 22/Downstream/122317
Upstream sequence
gcctgggcgacagagtgagactccatctcaaaaaaaaaaaaaaaaaaaaaaaaTCCTCTATTTCCTCTAAGGCAAGTTCAACTTCTGTTGCTTCCACAGA
Downstream sequence
CCTAGAAAATGAGTACATATAGAGTTGGGAAGGAAATTAAGGGATCTGCAGGGGAGCACTGTTGACTTCTTCCCCTTCTTCCCATTATATTTACTTCTGG
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.