Expression analysis of TCGA samples
Basic Information
VIS ID
TVIS10010481
Fusion event
HBV-TNRC18 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
Polymerase|large S protein|middle S protein|
Start
26
Orient
+
Integrated sequence
AATTCCACAACCTTCCACCAAACTCT| |GCAAGATCCCAGAGTGAGAGGCCTGTATTTCCCTGCTGGTGGCTCCAGTTCAGGAACAGTAAACCCTGTTCTGACTACTGCCTCTCCCTTATCGTCAATC
Host Sequence
Chromosome
chr7
Cytoband
p22.1
Reference genome
Start
End
5371978/5332347 (Hg38)
Orient
+
Location type
Intronic
Fragile sites / regions
Target gene
miRNAs that regulate target gene
hsa-mir-183-5p ; hsa-mir-34a-5p ; hsa-mir-1307-3p ; hsa-mir-455-3p ; hsa-mir-615-3p ; hsa-mir-92a-3p ; hsa-mir-218-5p ; hsa-mir-142-3p ; hsa-mir-193b-5p ; hsa-mir-20b-3p ; hsa-mir-29a-3p ; hsa-mir-29b-3p ; hsa-mir-29c-3p ; hsa-mir-3065-3p ; hsa-mir-3137 ; hsa-mir-3170 ; hsa-mir-3686 ; hsa-mir-383-3p ; hsa-mir-4291 ; hsa-mir-4652-3p ; hsa-mir-4743-3p ; hsa-mir-5572 ; hsa-mir-6737-5p ; hsa-mir-6812-5p ; hsa-mir-6819-5p ; hsa-mir-6855-5p ; hsa-mir-767-5p
Nearest miRNA
hsa-mir-339/Upstream/543708; hsa-mir-10399/Downstream/163472;
Nearest CpG islands
None/Target, chr7-CpG: 39/Upstream/11109, chr7-CpG: 51/Downstream/302
Upstream sequence
acagtaaagcactccaaatgtccacttgcagattctaaaaaaaggagaatttcaaaactgctcaatcgaaagacaggttcaactctgttagataaatgcg
Downstream sequence
gctagaggccaggaggtaaaggctgcagtgagccatgatcaggccactgcgctccagcctggtgacagagcaagagttgactcttaagaaacaaaggaaC
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.