SSBP3 _LIHC.png
Expression analysis of TCGA samples
Basic Information
VIS ID
TVIS10015628
Fusion event
HBV-SSBP3 integration
Validated
No
Detection method
MAPS
Data source
Curated
Sample type
Adjacent tissue
Disease
Hepatocellular carcinoma (HCC)
Quality evaluation
Perfect
Reported year
2012
PubMed ID
23236287
Virus Sequence
Virus name
HBV
Reference genome
AY800389.1;AY800390.1;AY800391.1;AY800392.1
Orient
+
Host Sequence
Chromosome
chr1
Cytoband
p32.3
Reference genome
GRCh37/hg19
Start
54742643/54276970 (Hg38)
End
54742643/54276970 (Hg38)
Orient
+
Location type
Intronic
Fragile sites / regions
FRA1B
Target gene
SSBP3
miRNAs that regulate target gene
hsa-mir-29b-1-5p
Nearest miRNA
hsa-mir-12136/Upstream/222816; hsa-mir-101-1/Downstream/948671;
Nearest TSS
ENST00000473358/Upstream/19704; ENST00000426901/Downstream/8435;
Nearest CpG islands
None/Target, chr1-CpG: 111/Upstream/76384, chr1-CpG: 24/Downstream/79347
Upstream sequence
AGGAACAGCCAGCCTAGCAGAGAGACTGACATGTAACCCATCCCCT
Junction sequence
AGGAACAGCCAGCCTAGCAGAGAGACTGACATGTAACCCATCCCCTTGAACACACCAATTTATGCCTACAGCCTCCTAGTACAAAGAC
* Color:  Human Sequence / Virus Sequence / Overlapped sequence / Unknown sequence
Reference
Ding, D., et al. Recurrent targeted genes of hepatitis B virus in the liver cancer genomes identified by a next-generation sequencing-based approach. PLoS Genet ,2010,8(12): e1003065.
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