Expression analysis of TCGA samples
Basic Information
VIS ID
TVIS10014492
Fusion event
HBV-C15orf41 integration
Validated
No
Detection method
NGS
Data source
Curated
Sample type
Disease
Hepatocellular carcinoma (HCC)
Quality evaluation
Normal
Reported year
2018
PubMed ID
Virus Sequence
Virus name
HBV
Reference genome
Region type
precore/core protein|Core and e antigen|Polymerase|
Start
2325
Orient
+
Integrated sequence
CACTTTTGGAAGAGAAACAGTTATAGAGTATTTGGTGTCTTTCGGAGTGTGGATTCGCACTCCTCCAGCTTATAGACCACCAAATGCCCCTATCCTATCA| |ACACTTCCGGAGACTACTGTTGTTAGACGACGAGGCAGGTCCCCTAGAAGAAGAACTCCCTCGCCTCGCAGACGAAGGTCTCAATCGCCGCGTCGCAGAA
Host Sequence
Chromosome
chr15
Cytoband
q14
Reference genome
Start
End
37010448/36718247 (Hg38)
Orient
+
Location type
Intronic
Target gene
miRNAs that regulate target gene
hsa-mir-375 ; hsa-mir-17-5p ; hsa-mir-574-5p ; hsa-mir-340-5p ; hsa-mir-6867-5p ; hsa-mir-223-5p ; hsa-mir-3713 ; hsa-mir-4673 ; hsa-mir-4645-5p ; hsa-mir-4742-5p ; hsa-mir-5586-5p ; hsa-mir-5590-3p ; hsa-mir-142-5p ; hsa-mir-595 ; hsa-mir-4796-3p ; hsa-mir-93-5p ; hsa-mir-526b-3p ; hsa-mir-519d-3p ; hsa-mir-20b-5p ; hsa-mir-20a-5p ; hsa-mir-106b-5p ; hsa-mir-106a-5p ; hsa-mir-548ah-5p ; hsa-mir-3609
Nearest miRNA
hsa-mir-1233-1/Upstream/791324; hsa-mir-10393/Downstream/254574;
Nearest CpG islands
None/Target, chr15-CpG: 55/Upstream/138551, chr15-CpG: 36/Downstream/99913
Upstream sequence
tacctttgtacaattgtcaaaaatcagttgttcatatacgtgtgggcctgtttctgagttctctgtttgttccatcatcggtttgtctataccaattcaa
Downstream sequence
cactgttttgattactgtaacattataattttgaaaacagatagtaggtcctccaactttgttattcttttcaaagttacattttgctgttcaagatctt
Reference
Yang, L., et al. Molecular Characterization of HBV DNA Integration in Patients with Hepatitis and Hepatocellular Carcinoma. J Cancer ,2018,9(18): 3225-3235.