PPFIA1 _LIHC.png
Expression analysis of TCGA samples
Basic Information
VIS ID
TVIS10000553
Fusion event
HBV-PPFIA1 integration
Validated
Yes
Detection method
PCR and Sanger sequencing
Data source
Curated
Sample type
Tumor
Disease
Hepatocellular carcinoma (HCC)
Quality evaluation
Perfect
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
chr11
Cytoband
q13.3
Reference genome
GRCh37/hg19
Start
70201816/70355710 (Hg38)
End
70201816/70355710 (Hg38)
Location type
Intronic
Fragile sites / regions
FRA11H ; FRA11A
Target gene
PPFIA1
miRNAs that regulate target gene
hsa-mir-18a-3p ; hsa-mir-324-3p ; hsa-mir-142-3p
Nearest miRNA
hsa-mir-10392/Upstream/71640; hsa-let-7a-2/Downstream/516560;
Nearest TSS
ENST00000527297/Upstream/6; ENST00000532793/Downstream/2967;
Nearest CpG islands
None/Target, chr11-CpG: 30/Upstream/84319, chr11-CpG: 79/Downstream/42472
Downstream sequence
AGCGAGTCCTGGCTACTGTTGCTACTGCTGGGGTTGCTCACGGGACCATCCTGGGAGCCTGTGGAGCTTCGAGGAAAGAAAACGGA
Target sequence
CAGGGCTGACCAGGGCTGGGTCCATGGTGCCCGCT
Junction sequence
GGTCAATGTCCATGCCCCAAAGCCACCCAAGGCACAGCTTGGAGGCTTGAACAGTAGGACATGAACATGAGATGATGTGGAGCGAGTCCTGGCTACTGTTGCTACTGCTGGGGTTGCTCACGGGACCATCCTGGGAGCCTGTGGAGCTTCGAGGAAAGAAAACGGA
* Color:  Human Sequence / Virus Sequence / Overlapped sequence / Unknown sequence
Reference
Zhao, L. H., et al.Genomic and oncogenic preference of HBV integration in hepatocellular carcinoma. Nat Commun ,2016,7: 12992.
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