Expression analysis of TCGA samples
Basic Information
VIS ID
TVIS10009693
Fusion event
HBV-STMP1 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
1823
Orient
-
Integrated sequence
TTTAAAGACTGGGAGGAGTTGGGGGAGGAGATTAGGTTAAAGGTCTTTGTACTAGGAGGCTGTAGGCATAAATTGGTCTGCGCACCAGCACCATGCAACT| |TTTTCACCTCTGCCTAATCATCTCTTGTTCATGTCCTACTGTTCAAGCCTCCAAGCTGTGCCTTGGGTGGCTTTGGGGCATGGACATCGACCCTTATAAA
Host Sequence
Chromosome
chr7
Cytoband
q33
Reference genome
End
135353961/135669213 (Hg38)
Orient
-
Location type
Intronic
Target gene
miRNAs that regulate target gene
hsa-mir-6510-3p ; hsa-mir-4688 ; hsa-mir-6720-5p ; hsa-mir-6512-3p ; hsa-mir-6721-5p ; hsa-mir-661 ; hsa-mir-873-3p ; hsa-mir-4522 ; hsa-mir-6860 ; hsa-mir-612 ; hsa-mir-5189-5p ; hsa-mir-3187-5p ; hsa-mir-1285-3p ; hsa-mir-766-3p ; hsa-mir-6849-3p ; hsa-mir-939-3p ; hsa-mir-922 ; hsa-mir-759 ; hsa-mir-5586-3p ; hsa-mir-3664-5p ; hsa-mir-508-5p ; hsa-mir-6516-5p ; hsa-mir-6807-5p ; hsa-mir-455-3p ; hsa-mir-650 ; hsa-mir-3612 ; hsa-mir-6499-3p ; hsa-mir-4722-5p ; hsa-mir-1827 ; hsa-mir-4433a-3p ; hsa-mir-940 ; hsa-mir-6893-5p ; hsa-mir-6808-5p ; hsa-mir-6864-3p ; hsa-mir-3672 ; hsa-mir-187-5p ; hsa-mir-4766-5p ; hsa-mir-1283 ; hsa-mir-6507-5p ; hsa-mir-186-5p ; hsa-mir-4668-5p ; hsa-mir-4641 ; hsa-mir-3613-3p ; hsa-mir-203a-3p ; hsa-mir-3115 ; hsa-mir-3978 ; hsa-mir-4747-5p ; hsa-mir-4781-3p ; hsa-mir-496 ; hsa-mir-5093 ; hsa-mir-5196-5p ; hsa-mir-567 ; hsa-mir-5681a ; hsa-mir-6077 ; hsa-mir-6871-5p ; hsa-mir-7854-3p ; hsa-mir-148b-5p ; hsa-mir-3168 ; hsa-mir-371a-5p ; hsa-mir-371b-5p ; hsa-mir-372-5p ; hsa-mir-373-5p ; hsa-mir-513c-5p ; hsa-mir-514b-5p ; hsa-mir-5584-3p ; hsa-mir-616-5p ; hsa-mir-6874-3p
Nearest miRNA
hsa-mir-10525/Upstream/462135; hsa-mir-10399/Downstream/1233954;
Nearest CpG islands
None/Target, chr7-CpG: 39/Upstream/6463, chr7-CpG: 41/Downstream/307880
Upstream sequence
ttttttttttttttattgatcattcttgggtgtttctcgcagagggggatttggcagggtcataggacaatagtggagggaaggtcagcagataaacaag
Downstream sequence
tgggtgggaacacagccaaaccgtatcaCCAGTTTAAATGTGAACACTTAGCATATTTAGAGCCTTTAATATCAACCTGAGGTATATATTTTTCAAGTAT
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.