Expression analysis of TCGA samples
Basic Information
VIS ID
TVIS10008751
Fusion event
HBV-DENND5B 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|precore/core protein|
Start
1822
Orient
-
Integrated sequence
GTTTAAAGACTGGGAGGAGTTGGGGGAGGAGATTAGGTTAAAGGTCTTTGTACTAGGAGGCTGTAGGCATAAATTGGTCTGCGCACCAGCACCATGCAAC| |TTTTTCACCTCTGCCTAATCATCTCTTGTTCATGTCCTACTGTTCAAGCCTCCAAGCTGTGCCTTGGGTGGCTTTGGGGCATGGACATCGACCCTTATAA
Host Sequence
Chromosome
chr12
Cytoband
p11.21
Reference genome
Start
End
31640261/31487327 (Hg38)
Orient
+
Location type
Intronic
Target gene
miRNAs that regulate target gene
hsa-mir-1298-5p ; hsa-mir-20a-5p ; hsa-mir-106b-5p ; hsa-mir-8061 ; hsa-mir-4760-5p ; hsa-mir-548s ; hsa-mir-3926 ; hsa-mir-4276 ; hsa-mir-2053 ; hsa-mir-569 ; hsa-mir-3152-3p ; hsa-mir-3650 ; hsa-mir-493-3p ; hsa-mir-5190 ; hsa-mir-4705 ; hsa-mir-5094 ; hsa-mir-8084 ; hsa-mir-4724-5p ; hsa-mir-3121-3p ; hsa-mir-655-3p ; hsa-mir-429 ; hsa-mir-374c-5p ; hsa-mir-200c-3p ; hsa-mir-200b-3p ; hsa-mir-1304-5p ; hsa-mir-1238-3p ; hsa-mir-670-3p ; hsa-mir-6881-3p ; hsa-mir-6780a-3p ; hsa-mir-7111-3p ; hsa-mir-6086 ; hsa-mir-377-5p ; hsa-mir-655-5p ; hsa-mir-1251-5p ; hsa-mir-329-5p ; hsa-mir-4538 ; hsa-mir-4453 ; hsa-mir-4284 ; hsa-mir-4772-3p ; hsa-mir-4638-5p ; hsa-mir-1307-3p ; hsa-mir-1304-3p ; hsa-mir-6741-3p ; hsa-mir-1914-5p ; hsa-mir-660-3p ; hsa-mir-6890-3p ; hsa-mir-1306-5p ; hsa-let-7g-3p ; hsa-let-7a-2-3p ; hsa-mir-7151-3p ; hsa-mir-5095 ; hsa-mir-6829-3p ; hsa-mir-6791-3p ; hsa-mir-1976 ; hsa-mir-3653-5p ; hsa-mir-486-5p ; hsa-mir-6747-3p ; hsa-mir-6727-3p ; hsa-mir-4722-3p ; hsa-mir-4438 ; hsa-mir-4279 ; hsa-mir-122-3p ; hsa-mir-6833-3p ; hsa-mir-6873-3p ; hsa-mir-4768-5p ; hsa-mir-6868-3p ; hsa-mir-6853-3p ; hsa-mir-3182 ; hsa-mir-6817-3p ; hsa-mir-7110-3p ; hsa-mir-1248 ; hsa-mir-1237-3p ; hsa-mir-4290 ; hsa-mir-4740-3p ; hsa-mir-4687-5p ; hsa-mir-449b-3p ; hsa-mir-6856-3p ; hsa-mir-8485 ; hsa-mir-4662a-5p ; hsa-mir-582-5p ; hsa-mir-600 ; hsa-mir-323b-3p ; hsa-mir-708-3p ; hsa-mir-144-3p ; hsa-mir-101-3p ; hsa-mir-93-5p ; hsa-mir-519d-3p ; hsa-mir-20b-5p ; hsa-mir-17-5p
Nearest miRNA
hsa-mir-1244-3/Upstream/5613248; hsa-let-7i/Downstream/10836373;
Nearest CpG islands
Upstream sequence
CTTAGGTAAAACCTATGAATACCTGGATTTGGTAGGGGGTAAAAGCCACTTATTCCTAGTCTTAGGAATAACTGTATAAGGAAAGGCTATGGCAGAATCT
Downstream sequence
TTTAATAATTCTACGTTCACATTAAGGCTGATTTCATCATAACAAGTTAATGAGTTGCTCTGCTGATAGCATGAATAAAAACTCATTTggctgggtgtag
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.