Expression analysis of TCGA samples
Basic Information
VIS ID
TVIS10006134
Fusion event
HBV-PPP1R1C integration
Validated
No
Detection method
PCR and Ultra-deep sequencing
Data source
Curated
Sample type
Disease
Hepatocellular carcinoma (HCC)
Quality evaluation
Normal
Reported year
2018
PubMed ID
Virus Sequence
Virus name
HBV
Reference genome
Start
1795
Orient
+
Integrated sequence
TTGAGGCATACTTCAAAGACTGTTTGTTTAAGGACTGGGAGGAGTTGGGGGAGGAGATTAGGTTAAAGGTCTTTGTACTAGGAGGCTGTAGGCATAAATT| |GGTCTGTTCACCAGCACCATGCAACTTTTTCACCTCTGCCTAATCATCTCATGTTCATGTCCTACTGTTCAAGCCTCCAAGCTGTGCCTTGGGTGGCTTT
Host Sequence
Chromosome
chr2
Cytoband
q31.3
Reference genome
End
182916715/182051988 (Hg38)
Orient
-
Location type
Intron
Fragile sites / regions
Target gene
miRNAs that regulate target gene
hsa-mir-146a-5p ; hsa-mir-3119 ; hsa-mir-5191 ; hsa-mir-6894-5p ; hsa-mir-3679-5p ; hsa-mir-1185-5p ; hsa-mir-4521 ; hsa-mir-6891-5p ; hsa-mir-3173-3p ; hsa-mir-4428 ; hsa-mir-7158-5p ; hsa-mir-767-3p ; hsa-mir-6826-5p ; hsa-mir-603 ; hsa-mir-8485 ; hsa-mir-3977 ; hsa-mir-4433a-3p ; hsa-mir-4459 ; hsa-mir-4712-5p ; hsa-mir-4768-3p ; hsa-mir-770-5p ; hsa-mir-936
Nearest miRNA
hsa-mir-10b/Upstream/746336; hsa-mir-1244-1/Downstream/2326987;
Nearest CpG islands
None/Target, chr2-CpG: 135/Upstream/159196, chr2-CpG: 53/Downstream/663978
Upstream sequence
tactcaggaggctgaggcaggagaattgcttgaaccaggaggctgaggttgcagtgagccgctgagatcgcgccgttgcactccagcctgggcgacacag
Downstream sequence
tgagactctgtctcaaaaaaaaaaaaaTCATGATAATACAATGATTAATACTTAATATTTTTGACAAAATTATTAAGCATCAATTCTAGATTGATGATTT
Reference
Tu, T., et al. Hepatitis B Virus DNA Integration Occurs Early in the Viral Life Cycle in an In Vitro Infection Model via Sodium Taurocholate Cotransporting Polypeptide-Dependent Uptake of Enveloped Virus Particles. J Virol ,2018,92(11).