SH2D4A _LIHC.png
Expression analysis of TCGA samples
Basic Information
VIS ID
TVIS10002397
Fusion event
HBV-SH2D4A 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
chr8
Cytoband
p21.3
Reference genome
GRCh37/hg19
Start
19183206/19325695 (Hg38)
End
19183206/19325695 (Hg38)
Location type
Intronic
Target gene
SH2D4A
miRNAs that regulate target gene
hsa-mir-1-3p ; hsa-mir-8055 ; hsa-mir-6864-3p ; hsa-mir-3672 ; hsa-mir-6867-3p ; hsa-mir-4713-5p ; hsa-mir-211-5p ; hsa-mir-204-5p ; hsa-mir-4468 ; hsa-mir-873-3p ; hsa-mir-942-5p ; hsa-mir-4685-3p ; hsa-mir-4287 ; hsa-mir-4469 ; hsa-mir-7113-3p ; hsa-mir-6832-3p ; hsa-mir-4461
Nearest miRNA
hsa-mir-124-1/Upstream/1644038; hsa-mir-10400/Downstream/2919271;
Nearest TSS
ENST00000518652/Upstream/6105; ENST00000518093/Downstream/35093;
Nearest CpG islands
None/Target, chr8-CpG: 109/Upstream/11150, chr8-CpG: 20/Downstream/135824
Upstream sequence
tgtattttgggtactttgatattttatgtacagtatataataagtatttggtgtactttgatattttatgtacagtatataacatgtatttggtgtactt
Downstream sequence
TAGTGCCATGCAGGTTCCCCAACTTTCTTTCTCTCCTCATCTCTAAATAAGCataaaaatttattaaaatgtttaaaaatCCACTTTGATATTAATAACT
Reference
Zhao, L. H., et al.Genomic and oncogenic preference of HBV integration in hepatocellular carcinoma. Nat Commun ,2016,7: 12992.
Curate