Expression analysis of TCGA samples
Basic Information
VIS ID
TVIS10014410
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
X protein|
Start
1807
Orient
-
Integrated sequence
CTTCAAAGACTGTTTGTTTAAAGACTGGGAGGAGTTGGGGGAGGAGATTAGGTTAAAGGTCTTTGTACTAGGAGGCTGTAGGCATAAATTGGTCTGCGCA| |CCAGCACCATGCAACTTTTTCACCTCTGCCTAATCATCTCTTGTTCATGTCCTACTGTTCAAGCCTCCAAGCTGTGCCTTGGGTGGCTTTGGGGCATGGA
Host Sequence
Chromosome
chr5
Cytoband
q33.2
Reference genome
End
155709001/156281991 (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/1452451; hsa-mir-103a-1/Downstream/4192411;
Nearest CpG islands
None/Target, chr5-CpG: 87/Upstream/552617, chr5-CpG: 45/Downstream/568300
Upstream sequence
GCAGCGCTGCCTGAAACTCGCGCCGCGAGGAGAgggcggggccgcggaaaggaaggggaggggctgggagggcccggagggggctgggccggggacccgg
Downstream sequence
ctgcactctagcctgggggacagagcgagactccatatccaaaaaaaaaaaCTTCTGTTCTCCAGTAGTTTTACCATACATCTGAAATGTTAAGTCTTGT
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.