Expression analysis of TCGA samples
Basic Information
VIS ID
TVIS10007973
Fusion event
HBV-RIMS1 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
S protein|Polymerase|large S protein|middle S protein|
Start
330
Orient
+
Integrated sequence
CCTCACAATACCGCAGAGTCTAGACTCGTGGTGGACTTCTCTCAATTTTCTAGGGGGAACTACCGTGTGTCTTGGCCAAAATTCGCAGTCCCCAACCTCC| |AATCACTCACCAACCTCTTGTCCTCCAACTTGTCCTGGTTATCGCTGGATGTGTCTGCGGCGTTTTATCATCTTCCTCTTCATCCTGCTGCTATGCCTCA
Host Sequence
Chromosome
chr6
Cytoband
q13
Reference genome
Start
End
73044095/72334392 (Hg38)
Orient
-
Location type
Intronic
Fragile sites / regions
Target gene
Nearest miRNA
hsa-mir-10398/Upstream/930771; hsa-mir-10524/Downstream/633295;
Nearest CpG islands
None/Target, chr6-CpG: 120/Upstream/151218, chr6-CpG: 174/Downstream/286822
Upstream sequence
AAGTGTTCACTGAAGAGTGCTAAGAGGTACAATTAAAAACACTATTACACTCTTATGAGCAAAAATTCATCCTAAGATAAGAGTTGTAACCAGCCCATAC
Downstream sequence
TGTGTTTCAGATATTTTCTGCTGCTTATAAATTTAAAAGCTTAATGTCCTAAAGGTATATATTTAAAAAGCAAATACAAAAGGGAGAGTGGCTATTTTTG
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.