Expression analysis of TCGA samples
Basic Information
VIS ID
TVIS10009529
Fusion event
HBV-PRR13 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
Polymerase|large S protein|middle S protein|
Start
111
Orient
+
Integrated sequence
CTTCCACCAAACTCTGCAAGATCCCAGAGTGAGAGGCCTGTATTTCCCTGCTGGTGGCTCCAGTTCAGGAACAGTAAACCCTGTTCTGACTACTGCCTCT| |CCCTTATCGTCAATCTTCTCGAGGATTGGGGACCCTGCGCTGAACATGGAGAACATCACATCAGGATTCCTAGGACCCCTTCTCGTGTTACAGGCGGGGT
Host Sequence
Chromosome
chr12
Cytoband
q13.13
Reference genome
Start
End
53838186/53444402 (Hg38)
Orient
-
Location type
Intronic
Fragile sites / regions
Target gene
miRNAs that regulate target gene
hsa-mir-425-5p ; hsa-mir-625-5p ; hsa-let-7d-5p ; hsa-mir-6848-3p ; hsa-mir-6843-3p ; hsa-mir-6878-3p ; hsa-mir-3187-3p ; hsa-mir-4435 ; hsa-mir-588 ; hsa-mir-4701-5p ; hsa-mir-548s ; hsa-mir-519e-5p ; hsa-mir-515-5p ; hsa-mir-6744-3p ; hsa-mir-4757-5p ; hsa-mir-6131 ; hsa-mir-4755-3p ; hsa-mir-3663-5p ; hsa-mir-3922-3p ; hsa-mir-5695 ; hsa-mir-3176 ; hsa-mir-519d-5p ; hsa-mir-8073 ; hsa-mir-221-5p ; hsa-mir-4781-3p ; hsa-mir-4715-3p ; hsa-mir-3686 ; hsa-mir-1227-3p ; hsa-mir-24-3p ; hsa-mir-4742-3p ; hsa-mir-149-5p ; hsa-mir-6758-3p ; hsa-mir-4778-5p ; hsa-mir-455-5p ; hsa-mir-3607-5p ; hsa-mir-4459 ; hsa-mir-6516-5p ; hsa-mir-455-3p ; hsa-mir-6799-5p ; hsa-mir-6883-5p ; hsa-mir-6785-5p ; hsa-mir-4728-5p ; hsa-mir-149-3p ; hsa-mir-7106-5p ; hsa-mir-25-5p ; hsa-mir-658 ; hsa-mir-6499-3p ; hsa-mir-6086 ; hsa-mir-377-5p ; hsa-mir-6087 ; hsa-mir-4537 ; hsa-mir-3192-5p ; hsa-mir-7851-3p ; hsa-mir-499b-3p ; hsa-mir-499a-3p ; hsa-mir-490-3p ; hsa-mir-100-3p ; hsa-mir-127-5p ; hsa-mir-2278 ; hsa-mir-30c-1-3p ; hsa-mir-30c-2-3p ; hsa-mir-3928-5p ; hsa-mir-4468 ; hsa-mir-6731-5p ; hsa-mir-6788-5p ; hsa-mir-6806-3p ; hsa-mir-6871-5p ; hsa-mir-6878-5p ; hsa-mir-8085
Nearest miRNA
hsa-mir-1244-3/Upstream/387390; hsa-let-7i/Downstream/547336;
Nearest CpG islands
None/Target, chr12-CpG: 104/Upstream/2618, chr12-CpG: 24/Downstream/7482
Upstream sequence
TTCTAACAAAGCCTAGGACTAAGGAGGttttttttttttttttttgagacggagtcccgctctttagcccaggccagattgcagtggcacaatctcggct
Downstream sequence
cactgcaagctccgcctcccaggttcacgccattctcctgcctcagcctcccgagtagctgggactacaggcgcccgccaccgcgcccggctaattcttt
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.