EFHC2 _LIHC.png
Expression analysis of TCGA samples
Basic Information
VIS ID
TVIS10006811
Fusion event
HBV-EFHC2 integration
Validated
Yes
Detection method
invPCR +Sequencing
Data source
Curated
Sample type
Tumor
Disease
Hepatocellular carcinoma (HCC)
Quality evaluation
Perfect
Reported year
2016
PubMed ID
27453547
Virus Sequence
Virus name
HBV
Reference genome
V01460.1
Start
1817
Integrated sequence
CCGAGAAGGGTCGTCCGCAGGATTCAGCGCCGACGGGACGTAAACAAAGGACGTCCCGCGCAGGATCCAGTTGGCAGCACAGCCTAGCAGCCATGGAAAC| |GATGTATATTTGCGGGATAGGACAACAGAGTTATCAGTCCCGATAATGTTTGCTCCAGACCTGCTGCGAGCAAAACAAGCGGCTAGGAGTTCCGCAGTAT
Host Sequence
Chromosome
chrX
Cytoband
p11.3
Reference genome
GRCh38
Start
44242614 (Hg38)
End
44242614 (Hg38)
Location type
Intron
Target gene
EFHC2
miRNAs that regulate target gene
hsa-mir-3689d ; hsa-mir-4443 ; hsa-mir-4455 ; hsa-mir-574-5p ; hsa-mir-6515-5p ; hsa-mir-6767-3p ; hsa-mir-6851-5p ; hsa-mir-6867-5p
Nearest miRNA
hsa-mir-1587/Upstream/4405001; hsa-let-7f-2/Downstream/1503543;
Nearest TSS
ENST00000429181/Upstream/16858; ENST00000339042/Downstream/101058;
Nearest CpG islands
None/Target, chrX-CpG: 62/Upstream/360033, chrX-CpG: 24/Downstream/67650
Downstream sequence
AAAATTCAAACTTGAAACT
Junction sequence
GGTCTGCGCACCAGCACCATAAAATTCAAACTTGAAACT
* Color:  Human Sequence / Virus Sequence / Overlapped sequence / Unknown sequence
Reference
Mason, W. S., et al. HBV DNA Integration and Clonal Hepatocyte Expansion in Chronic Hepatitis B Patients Considered Immune Tolerant. Gastroenterology,2016, 151(5): 986-998 e984.
Curate