SCEL _LIHC.png
Expression analysis of TCGA samples
Basic Information
VIS ID
TVIS10009394
Fusion event
HBV-SCEL integration
Validated
No
Detection method
NGS
Data source
Curated
Sample type
Tumor
Disease
Hepatocellular carcinoma (HCC)
Quality evaluation
Normal
Reported year
2018
PubMed ID
30271481
Virus Sequence
Virus name
HBV
Reference genome
NC_003977
Region type
X protein|precore/core protein|
Start
1828
Orient
+
Integrated sequence
AGACTGGGAGGAGTTGGGGGAGGAGATTAGGTTAAAGGTCTTTGTACTAGGAGGCTGTAGGCATAAATTGGTCTGCGCACCAGCACCATGCAACTTTTTC| |ACCTCTGCCTAATCATCTCTTGTTCATGTCCTACTGTTCAAGCCTCCAAGCTGTGCCTTGGGTGGCTTTGGGGCATGGACATCGACCCTTATAAAGAATT
Host Sequence
Chromosome
chr13
Cytoband
q22.3
Reference genome
GRCh37/hg19
Start
78145584/77571449 (Hg38)
End
78145584/77571449 (Hg38)
Orient
+
Location type
Intronic
Fragile sites / regions
FRA13E
Target gene
SCEL
Nearest miRNA
hsa-mir-1297/Upstream/11353125; hsa-mir-1267/Downstream/126563;
Nearest TSS
ENST00000623511/Upstream/35689; ENST00000469982/Downstream/25579;
Nearest CpG islands
None/Target, chr13-CpG: 551/Upstream/241712, chr13-CpG: 95/Downstream/126204
Upstream sequence
cagcctgggagacagcgagactacatctcaaaaaaaaaaaaaaaaaTTATATTTTGAAgctgggcgcagtggctcatgcctgtaatcccagcactttcag
Downstream sequence
aggccgaggcaggtggatcacctgaggtcgggagttcgagaccagcctgaccaacatggagaaaccccatctctactaaaaattacaaaattagctgggc
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.
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