Expression analysis of TCGA samples
Basic Information
VIS ID
TVIS10012177
Fusion event
HBV-CDK11B 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
precore/core protein|Core and e antigen|Polymerase|
Start
2332
Orient
+
Integrated sequence
GGAAGAGAAACAGTTATAGAGTATTTGGTGTCTTTCGGAGTGTGGATTCGCACTCCTCCAGCTTATAGACCACCAAATGCCCCTATCCTATCAACACTTC| |CGGAGACTACTGTTGTTAGACGACGAGGCAGGTCCCCTAGAAGAAGAACTCCCTCGCCTCGCAGACGAAGGTCTCAATCGCCGCGTCGCAGAAGATCTCA
Host Sequence
Chromosome
chr1
Cytoband
p36.33
Reference genome
Start
End
1578746/1643385 (Hg38)
Orient
-
Location type
Intronic
Fragile sites / regions
Target gene
Nearest miRNA
hsa-mir-12136/Upstream/303677; hsa-mir-101-1/Downstream/1484590;
Nearest CpG islands
None/Target, chr1-CpG: 111/Upstream/2715, chr1-CpG: 24/Downstream/1631
Upstream sequence
aaaagacccgtgaagaccctgagtttccacaacaggccgaccccacagacacagcccagcacaaccaaaacaacaagtgcacacccttgagtggggacca
Downstream sequence
ggaagaatcacatcatgagaatcaaatgtccatttttttgactaagaaaaacacaagagaaacaaagaaataggacagtatgtcccattcagaggggaaa
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.