LMF1 _LIHC.png
Expression analysis of TCGA samples
Basic Information
VIS ID
TVIS10014246
Fusion event
HBV-LMF1 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
Polymerase|large S protein|
Start
3200
Orient
-
Integrated sequence
CTCCACCAATCGCCAGTCAGGAAGGCAGCCTACCCCGCTGTCTCCACCTTTGAGAAACACTCATCCTCAGGCCATGCAGTGG| |
Host Sequence
Chromosome
chr16
Cytoband
p13.3
Reference genome
GRCh37/hg19
Start
916918/866918 (Hg38)
End
916918/866918 (Hg38)
Orient
-
Location type
Intronic
Target gene
LMF1
miRNAs that regulate target gene
hsa-mir-935
Nearest miRNA
hsa-mir-3176/Upstream/96641; hsa-mir-11401/Downstream/868067;
Nearest TSS
ENST00000527434/Upstream/10970; ENST00000569106/Downstream/2050;
Nearest CpG islands
None/Target, chr16-CpG: 29/Upstream/7181, chr16-CpG: 19/Downstream/2940
Upstream sequence
attactgggtttccagtttcctcacccccaagtctagaaaatgaggccgaaagcaagcctaggcgatcaccaccattttggggctgtggctccgtcccga
Downstream sequence
gggccctgctggtggctctcttctctcaccttcggtcttcctgttttatgtataacgtccagggatcttggttgcacttagtgggaggaacaggggtaag
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