Expression analysis of TCGA samples
Basic Information
VIS ID
TVIS10018582
Fusion event
HBV-ASXL3 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
453
Integrated sequence
TCCAACTTGTCCTGGTTATCGCTGGATGTGTCTGCGGCGTTTTATCATCTTCCTCTTCATCCTGCTGCTATGCCTCATCTTCTTGTTGGTTCTTCTGGAC| |TATCAAGGTATGTTGCCCGTTTGTCCTCTAATTCCAGGATCCTCAACAACCAGCACGGGACCATGCCGGACCTGCATGACTACTGCTCAAGGAACCTCTA
Host Sequence
Chromosome
chr18
Cytoband
q12.1
Reference genome
Start
End
31208294/33628330 (Hg38)
Location type
Intron2
Fragile sites / regions
Target gene
miRNAs that regulate target gene
hsa-mir-221-3p ; hsa-mir-26b-5p ; hsa-mir-6780b-5p ; hsa-mir-4725-3p ; hsa-mir-4271 ; hsa-mir-5196-5p ; hsa-mir-4747-5p ; hsa-mir-4533 ; hsa-mir-6722-3p ; hsa-mir-1909-3p ; hsa-mir-6783-5p ; hsa-mir-4779 ; hsa-mir-6510-5p ; hsa-mir-3120-3p ; hsa-mir-6891-5p ; hsa-mir-3173-3p ; hsa-mir-1305 ; hsa-mir-4659b-3p ; hsa-mir-4659a-3p ; hsa-mir-6875-3p ; hsa-mir-498 ; hsa-mir-4465 ; hsa-mir-26a-5p ; hsa-mir-6715b-3p ; hsa-mir-1297 ; hsa-mir-676-5p ; hsa-mir-7844-5p ; hsa-mir-708-3p
Nearest miRNA
hsa-mir-1-2/Upstream/3329370; hsa-mir-122/Downstream/1963407;
Nearest CpG islands
None/Target, chr18-CpG: 67/Upstream/49307, chr18-CpG: 45/Downstream/530753
Upstream sequence
acgaatacaaaatgaaagtgaatattgatttggaatgacaatagaaatggtgatacattatggatgtcacaaatgttataaaatccagaataacattaac
Downstream sequence
TAGAGAAAAGATTTTGAAAAGAAGAAGAAAATGATGGTTAGGAGACATGAACAAACCAAGGAGGAAATGAGAGACATAGGAATGTATTAGGATAATGTTG
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.