SH2D1A _LIHC.png
Expression analysis of TCGA samples
Basic Information
VIS ID
TVIS10016384
Fusion event
HBV-SH2D1A 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
2090
End
2125
Orient
+
Integrated sequence
GGAACTAATGACTCTAGCTACCTGGGTGGGTGTTAA
Host Sequence
Chromosome
chrX
Cytoband
q25
Reference genome
GRCh37/hg19
Start
123504192/124370342 (Hg38)
End
123504227/124370377 (Hg38)
Orient
+
Location type
Intronic
Target gene
SH2D1A
miRNAs that regulate target gene
hsa-mir-142-3p ; hsa-mir-3606-3p ; hsa-mir-653-3p ; hsa-mir-4420 ; hsa-mir-181b-3p ; hsa-mir-181b-2-3p ; hsa-mir-5701 ; hsa-mir-1208 ; hsa-mir-6760-3p
Nearest miRNA
hsa-let-7f-2/Upstream/2999289; hsa-mir-105-1/Downstream/9799001;
Nearest TSS
ENST00000429181/Upstream/23753; ENST00000632600/Downstream/126766;
Nearest CpG islands
None/Target, chrX-CpG: 62/Upstream/36995, chrX-CpG: 17/Downstream/832544
Nearby gene
STAG2(-267722) ; TENM1(+5528) ;
Upstream sequence
caccattgaagccagaaggcagtggaatatctttaatattctgagattaagtaactgtcaaattggaatttcatacccacggaaactatatttcaagaac
Downstream sequence
TGTTCATAACCATATAATCAATTAGAAGTTATGTAAGAAAAATGCAGTGAGAAAGTAGATGTAGCCAGCAAGTCAAATGAGAGGTGACAATTTATGTGCT
Target sequence
GACAGGGTTTGGAAGCTCAGAGTTATGAGTCAACC
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