Expression analysis of TCGA samples
Basic Information
VIS ID
TVIS10009495
Fusion event
HBV-GIPC2 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
X protein|
Start
1811
Orient
-
Integrated sequence
AAAGACTGTTTGTTTAAAGACTGGGAGGAGTTGGGGGAGGAGATTAGGTTAAAGGTCTTTGTACTAGGAGGCTGTAGGCATAAATTGGTCTGCGCACCAG| |CACCATGCAACTTTTTCACCTCTGCCTAATCATCTCTTGTTCATGTCCTACTGTTCAAGCCTCCAAGCTGTGCCTTGGGTGGCTTTGGGGCATGGACATC
Host Sequence
Chromosome
chr1
Cytoband
p31.1
Reference genome
Start
End
78594425/78128741 (Hg38)
Orient
-
Location type
Intronic
Fragile sites / regions
Target gene
miRNAs that regulate target gene
Nearest miRNA
hsa-mir-101-1/Upstream/1068539; hsa-mir-11399/Downstream/7005053;
Nearest CpG islands
None/Target, chr1-CpG: 111/Upstream/82264, chr1-CpG: 70/Downstream/362198
Upstream sequence
acatatacatacacacatacgcatagatgtatttatgctcacatacaGTGAAAGAGATATGATATAGTATTGCTTACAGGCATACATATTTGGCTTGAGG
Downstream sequence
ccctaaccctaaccctaaccctaaccctaaccctaaAAgagaccagcctgggcaacatagtgagatgagaccctgtctctactaaaaaaacaaaaacaaa
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.