Expression analysis of TCGA samples
Basic Information
VIS ID
TVIS10017807
Fusion event
HBV-GNLY integration
Validated
No
Detection method
TS
Data source
Curated
Sample type
Disease
Hepatocellular carcinoma (HCC)
Quality evaluation
Normal
Reported year
2016
PubMed ID
Virus Sequence
Virus name
HBV
Subtype
C
Reference genome
Region type
pre-S1/pre-S2/S;Polymerase;
Start
475
Integrated sequence
GATGTGTCTGCGGCGTTTTATCATCTTCCTCTTCATCCTGCTGCTATGCCTCATCTTCTTGTTGGTTCTTCTGGACTACCAAGGTATGTTGCCCGTTTGT| |CCTCTACTTCCAGGAACATCAACTACCAGCACGGGACCATGCAAGACCTGCACGATTCCTGCTCAAGGAACCTCTATGTTTCCCTCGTGTTGCTGTACAA
Host Sequence
Chromosome
chr2
Cytoband
p11.2
Reference genome
Start
End
85922488/85695365 (Hg38)
Location type
Exonic
Target gene
Nearest miRNA
hsa-mir-1285-2/Upstream/5828782; hsa-mir-10b/Downstream/88235;
Nearest CpG islands
None/Target, chr2-CpG: 135/Upstream/78811, chr2-CpG: 174/Downstream/58011
Upstream sequence
CTCTTACCTGTCTTTTTCCTTCCAATCAGGGGCTCGCTCTTCTGATTATTCTTCAGGGCAATGACATAAATTGTATATTCGGTTCCCGGTTCCAGGCCTG
Downstream sequence
AGCCCACCTGCGTGATGAGGAGAAATCCTGCCCGTGCCTGGCCCAGGAGGGCCCCCAGGTACGTGTTGGCTCTCTGCTCACCTGCCACAGTCCCTCTCCT
Reference
Chiu, Y. T., et al. Novel pre-mRNA splicing of intronically integrated HBV generates oncogenic chimera in hepatocellular carcinoma. J Hepatol ,2016,64(6): 1256-1264.