Expression analysis of TCGA samples
Basic Information
VIS ID
TVIS10014955
Fusion event
HBV-NLRP7 integration
Validated
No
Detection method
WGS
Data source
Curated
Sample type
Disease
Hepatocellular carcinoma (HCC)
Quality evaluation
Normal
Reported year
2012
PubMed ID
Virus Sequence
Virus name
HBV
Reference genome
Region type
HBVgp1 Polymerase
Start
2719
Orient
-
Integrated sequence
AAGAAGATTGCAATTGATTATGCCTGCCAGGTTTTATCCAAAGGTTACCAAATATTTACCATTGGATAAGGGTATTAAACCTTATTATCCAGAACATCTA| |GTTAATCATTACTTCCAAACTAGACACTATTTACACACTCTATGGAAGGCGGGTATATTATATAAGAGAGAAACAACACATAGCGCCTCATTTTGTGGGT
Host Sequence
Chromosome
chr19
Cytoband
q13.42
Reference genome
Start
End
55446349/54934981 (Hg38)
Orient
-
Location type
Intronic
Fragile sites / regions
Target gene
miRNAs that regulate target gene
Nearest miRNA
hsa-let-7e/Upstream/289598; hsa-mir-10394/Downstream/188244;
Nearest CpG islands
None/Target, chr19-CpG: 112/Upstream/407697, chr19-CpG: 28/Downstream/4473
Upstream sequence
agacgggatttcaccatgttggccacactggtcttgaactcctgacctcaggtgatccacccaccttggcctaccgaagtactgggattacaggtgtgag
Downstream sequence
ccaccgcgcctggccCAGATCAGCTTCTTCTGCTTCACTTCCCAAGACATTATGTCTTTGGTTTATCTCATTCTACTCATGCCTCCAACCCTGGCCTGAA
Reference
Sung, W. K., et al. Genome-wide survey of recurrent HBV integration in hepatocellular carcinoma. Nat Genet,2012, 44(7): 765-769.