SAFB _LIHC.png
Expression analysis of TCGA samples
Basic Information
VIS ID
TVIS10002089
Fusion event
HBV-SAFB integration
Validated
No
Detection method
HIVID
Data source
Curated
Sample type
Tumor
Disease
Hepatocellular carcinoma (HCC)
Quality evaluation
Normal
Reported year
2016
PubMed ID
27703150
Virus Sequence
Virus name
HBV
Reference genome
AF090842.1;AB033554.1;AB014381.1;M32138.1;AB032431.1;AB036910.1;AB064310;AY090454.1
Host Sequence
Chromosome
chr19
Cytoband
p13.3
Reference genome
GRCh37/hg19
Start
5632865/5632854 (Hg38)
End
5632865/5632854 (Hg38)
Location type
Intronic
Fragile sites / regions
FRA19B
Target gene
SAFB
miRNAs that regulate target gene
hsa-mir-26b-5p ; hsa-mir-1229-3p ; hsa-mir-331-5p ; hsa-mir-92a-3p ; hsa-let-7c-5p ; hsa-let-7b-5p
Nearest miRNA
hsa-mir-1227/Upstream/700114; hsa-let-7e/Downstream/756784;
Nearest TSS
ENST00000633603/Upstream/8808; ENST00000590485/Downstream/8997;
Nearest CpG islands
None/Target, chr19-CpG: 112/Upstream/9153, chr19-CpG: 100/Downstream/47568
Nearest cancer related gene
SAFB(TSG, No orient, 0)
Upstream sequence
tgaaaccgggtcttgccctgttacccaggccagagtgcaatggtgcaattgtaggtcactgcaaccctgaattgctgtgctcaagcgatcctcccacctt
Downstream sequence
ggcctcccaaagagttgggattacagacatgagccaccacgcccagcctatattgtcatcagagtatactatccagaggcacatgctgtcagtttgagcc
Reference
Zhao, L. H., et al.Genomic and oncogenic preference of HBV integration in hepatocellular carcinoma. Nat Commun ,2016,7: 12992.
Curate