E4F1 _LIHC.png
Expression analysis of TCGA samples
Basic Information
VIS ID
TVIS10012249
Fusion event
HBV-E4F1 integration
Validated
No
Detection method
NGS
Data source
Curated
Sample type
Nontumor
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
1821
Orient
+
Integrated sequence
TGTTTAAAGACTGGGAGGAGTTGGGGGAGGAGATTAGGTTAAAGGTCTTTGTACTAGGAGGCTGTAGGCATAAATTGGTCTGCGCACCAGCACCATGCAA| |CTTTTTCACCTCTGCCTAATCATCTCTTGTTCATGTCCTACTGTTCAAGCCTCCAAGCTGTGCCTTGGGTGGCTTTGGGGCATGGACATCGACCCTTATA
Host Sequence
Chromosome
chr16
Cytoband
p13.3
Reference genome
GRCh37/hg19
Start
2272837/2222836 (Hg38)
End
2272837/2222836 (Hg38)
Orient
+
Location type
upstream
Target gene
E4F1
miRNAs that regulate target gene
hsa-mir-99a-5p ; hsa-mir-92a-3p
Nearest miRNA
hsa-mir-1225/Upstream/86707; hsa-mir-11401/Downstream/47877;
Nearest TSS
ENST00000527434/Upstream/8029; ENST00000562589/Downstream/730;
Nearest CpG islands
None/Target, chr16-CpG: 29/Upstream/7409, chr16-CpG: 98/Downstream/382
Upstream sequence
aaGTggctgggcacggtggctcacgcctgtaatcccagcactttgggaggccgaggcgggcggatcacgaggtcaggagatcgagaccatcctggctatc
Downstream sequence
acggtgaaaccccgtctctactaaaaatacaaaaaattagcctggcgtggtggcggacacctgtagtcccagctactcaggaggctgaggcaggagaatg
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.
Curate