Expression analysis of TCGA samples
Basic Information
VIS ID
TVIS10011394
Fusion event
HBV-ACER2 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|
Start
2061
Orient
+
Integrated sequence
TTCTGACTTCTTTCCTTCAGTACGAGATCTTCTAGATACCGCCTCAGCTCTGTATCGGGAAGCCTTAGAGTCTCCTGAGCATTGTTCACCTCACCATACT| |GCACTCAGGCAAGCAATTCTTTGCTGGGGGGAACTAATGACTCTAGCTACCTGGGTGGGTGTTAATTTGGAAGATCCAGCGTCTAGAGACCTAGTAGTCA
Host Sequence
Chromosome
chr9
Cytoband
p22.1
Reference genome
Start
End
19442389/19442391 (Hg38)
Orient
-
Location type
Intronic
Target gene
miRNAs that regulate target gene
hsa-let-7a-5p ; hsa-let-7b-5p ; hsa-let-7c-5p ; hsa-let-7d-5p ; hsa-let-7e-5p ; hsa-let-7f-5p ; hsa-mir-98-5p ; hsa-mir-196a-5p ; hsa-let-7g-5p ; hsa-let-7i-5p ; hsa-mir-196b-5p ; hsa-mir-541-5p ; hsa-mir-4257 ; hsa-mir-4458 ; hsa-mir-4500 ; hsa-mir-122-5p ; hsa-mir-329-5p ; hsa-mir-504-3p ; hsa-mir-4280 ; hsa-mir-4464 ; hsa-mir-4748 ; hsa-mir-498 ; hsa-mir-505-3p ; hsa-mir-548v ; hsa-mir-4700-3p ; hsa-mir-513b-3p ; hsa-mir-7150 ; hsa-mir-4512 ; hsa-mir-106b-5p ; hsa-mir-20a-5p ; hsa-mir-20b-5p ; hsa-mir-106a-5p ; hsa-mir-17-5p ; hsa-mir-519d-3p ; hsa-mir-526b-3p ; hsa-mir-93-5p ; hsa-mir-182-5p ; hsa-mir-96-5p ; hsa-mir-1271-5p ; hsa-mir-27b-3p ; hsa-mir-27a-3p ; hsa-mir-140-3p ; hsa-mir-1244 ; hsa-mir-3613-3p ; hsa-mir-27a-5p ; hsa-mir-4668-5p ; hsa-mir-199a-3p ; hsa-mir-199b-3p ; hsa-mir-215-3p ; hsa-mir-222-5p ; hsa-mir-3120-5p ; hsa-mir-3129-5p ; hsa-mir-5007-5p ; hsa-mir-6753-3p ; hsa-mir-6773-3p ; hsa-mir-6777-3p ; hsa-mir-6888-3p ; hsa-mir-7107-3p ; hsa-mir-936
Nearest miRNA
hsa-mir-101-2/Upstream/869012; hsa-let-7a-1/Downstream/968757;
Nearest CpG islands
None/Target, chr9-CpG: 64/Upstream/33104, chr9-CpG: 91/Downstream/345826
Upstream sequence
TATTAAAATTATAAAAGTTGCATAAACAGGAAAGATTATACAAATATACCATAAAAAGTACTTATAATAAAAATATGAGAAAAATACAAACTGATATGTA
Downstream sequence
GGACCGCAGCTTTGGACAAGCCCCGAGTGCAAATAAGGCTGGTCAGCAGCTTCTAGCAGGATCTGCTTCTTCTAGAAGCAGAGAAAGGTAACAGGCTGCC
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.