SUSD4 _LIHC.png
Expression analysis of TCGA samples
Basic Information
VIS ID
TVIS10016209
Fusion event
HBV-SUSD4 integration
Validated
No
Detection method
WGS
Data source
Curated
Sample type
Nontumor
Disease
Hepatocellular carcinoma (HCC)
Quality evaluation
Good
Reported year
2012
PubMed ID
22267523
Virus Sequence
Virus name
HBV
Reference genome
NC_003977
Start
2195
End
2230
Orient
+
Integrated sequence
GCAACTCTTGTGGTTTCACATTTCTTGTCTCACTTT
Host Sequence
Chromosome
chr1
Cytoband
q41
Reference genome
GRCh37/hg19
Start
223516161/223342819 (Hg38)
End
223516196/223342854 (Hg38)
Orient
-
Location type
Intronic
Target gene
SUSD4
miRNAs that regulate target gene
hsa-mir-218-5p
Nearest miRNA
hsa-mir-101-1/Upstream/3142200; hsa-mir-1182/Downstream/914186;
Nearest TSS
ENST00000473358/Upstream/50250; ENST00000366875/Downstream/20483;
Nearest CpG islands
None/Target, chr1-CpG: 111/Upstream/199472, chr1-CpG: 183/Downstream/20646
Upstream sequence
TTAGACATTACAGGTTATGCTTTGAGATCTCTTTGGGGTGAAGGATTGAAATTAAACCCTGAGCCACCGTGTCCTTGTAGAGCACAGAGTAGAGAACAAC
Downstream sequence
atggcagaaaccatagagaaaaaaagttgactgcattatcatcaatgcaattaaaggccagtaaaaactgcaagaatgaacattgttgatatgtgaaagg
Target sequence
aactttctaagcctaataccaataccggtttctct
Reference
Jiang, S., et al. Re-evaluation of the carcinogenic significance of hepatitis B virus integration in hepatocarcinogenesis. PLoS One ,2012, 7(9): e40363.
Curate