Expression analysis of TCGA samples
Basic Information
VIS ID
TVIS10009267
Fusion event
HBV-SGCD 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
S protein|Polymerase|large S protein|middle S protein|
Start
707
Orient
+
Integrated sequence
CCATCCCATCATCCTGGGCTTTCGGAAAATTCCTATGGGAGTGGGCCTCAGCCCGTTTCTCCTGGCTCAGTTTACTAGTGCCATTTGTTCAGTGGTTCGT| |AGGGCTTTCCCCCACTGTTTGGCTTTCAGTTATATGGATGATGTGGTATTGGGGGCCAAGTCTGTACAGCATCTTGAGTCCCTTTTTACCGCTGTTACCA
Host Sequence
Chromosome
chr5
Cytoband
q33.3
Reference genome
End
156085135/156658124 (Hg38)
Orient
+
Location type
Intronic
Target gene
miRNAs that regulate target gene
hsa-mir-335-5p ; hsa-mir-647 ; hsa-mir-1294 ; hsa-mir-4316 ; hsa-mir-6762-3p ; hsa-mir-604 ; hsa-mir-3926 ; hsa-mir-4480 ; hsa-mir-5008-5p ; hsa-mir-6089 ; hsa-mir-4761-5p ; hsa-mir-641 ; hsa-mir-3617-5p ; hsa-mir-10b-3p ; hsa-mir-5680 ; hsa-mir-1305 ; hsa-mir-607 ; hsa-mir-511-5p ; hsa-mir-6830-3p ; hsa-mir-627-3p ; hsa-mir-4698 ; hsa-mir-8063 ; hsa-mir-4307 ; hsa-mir-6839-3p ; hsa-mir-519e-5p ; hsa-mir-515-5p ; hsa-mir-629-5p ; hsa-mir-365b-5p ; hsa-mir-365a-5p ; hsa-mir-8052 ; hsa-mir-3199 ; hsa-mir-5695 ; hsa-mir-519d-5p ; hsa-mir-4506 ; hsa-mir-335-3p ; hsa-mir-4477a ; hsa-mir-6759-3p ; hsa-mir-3152-3p ; hsa-mir-33a-3p ; hsa-mir-409-3p ; hsa-mir-320e
Nearest miRNA
hsa-mir-10397/Upstream/1828584; hsa-mir-103a-1/Downstream/3816278;
Nearest CpG islands
None/Target, chr5-CpG: 87/Upstream/928750, chr5-CpG: 45/Downstream/192167
Upstream sequence
ctaaccctaaccctaaccctaaccctaaccctaaccctaaccctaaccctaaccctaaccctaaccctaaccctaaccctaaccctaaccctaaccctaa
Downstream sequence
catacaatcgggttttataccgagacattccattgcccagggacaggcaggagacagatgccttcctcttgtctcaactgcaagaggcattccttcctct
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.