Expression analysis of TCGA samples
Basic Information
VIS ID
TVIS10019883
Fusion event
HBV-SORD 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
1813
Integrated sequence
AGACTGTTTGTTTAAAGACTGGGAGGAGTTGGGGGAGGAGATTAGGTTAAAGGTCTTTGTACTAGGAGGCTGTAGGCATAAATTGGTCTGCGCACCAGCA| |CCATGCAACTTTTTCACCTCTGCCTAATCATCTCTTGTTCATGTCCTACTGTTCAAGCCTCCAAGCTGTGCCTTGGGTGGCTTTGGGGCATGGACATCGA
Host Sequence
Chromosome
chr15
Cytoband
q21.1
Reference genome
Start
End
45343901/45051703 (Hg38)
Location type
Intron3
Target gene
miRNAs that regulate target gene
hsa-mir-98-5p ; hsa-mir-484 ; hsa-mir-10a-5p ; hsa-mir-6836-3p ; hsa-mir-378a-5p ; hsa-mir-6749-3p ; hsa-mir-6829-3p ; hsa-mir-6791-3p ; hsa-mir-6778-3p ; hsa-mir-345-5p ; hsa-mir-3653-5p ; hsa-mir-4469 ; hsa-mir-6747-3p ; hsa-mir-6727-3p ; hsa-mir-4722-3p ; hsa-mir-660-3p ; hsa-mir-5193 ; hsa-mir-4667-3p ; hsa-mir-1470 ; hsa-mir-6514-3p ; hsa-mir-6862-5p ; hsa-mir-4253 ; hsa-mir-3945 ; hsa-mir-24-3p ; hsa-mir-4284 ; hsa-mir-3622b-5p ; hsa-mir-6847-3p ; hsa-mir-6811-3p ; hsa-mir-214-5p ; hsa-mir-6860 ; hsa-mir-612 ; hsa-mir-5189-5p ; hsa-mir-3187-5p ; hsa-mir-1285-3p ; hsa-mir-4264 ; hsa-mir-4797-3p ; hsa-mir-152-3p ; hsa-mir-148b-3p ; hsa-mir-148a-3p ; hsa-mir-520f-3p ; hsa-mir-302c-3p ; hsa-mir-216b-5p ; hsa-mir-216a-5p ; hsa-mir-6873-3p ; hsa-mir-9-3p ; hsa-mir-7162-5p ; hsa-mir-516b-3p ; hsa-mir-516a-3p ; hsa-mir-942-5p ; hsa-mir-302a-5p ; hsa-mir-6817-3p ; hsa-mir-7110-3p ; hsa-mir-1248 ; hsa-mir-1237-3p ; hsa-mir-483-3p
Nearest miRNA
hsa-mir-10393/Upstream/333810; hsa-mir-11181/Downstream/381347;
Nearest CpG islands
None/Target, chr15-CpG: 55/Upstream/28358, chr15-CpG: 101/Downstream/59347
Upstream sequence
TCCACCTGCCTCTCATACAGCCAGGCCCCTCAAATTACCAACACGCTAAGCAAGGGCCCTGGAGACAAGCAAGCCTGTTTTGCCACTTAGGAagctggaa
Downstream sequence
tactattaatgtcaaccccaacttttttaatgaaaccttagagataattctatcaaatcttacccagtttgatcatgaggtgagattcttgtaaaccttt
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.