Expression analysis of TCGA samples
Basic Information
VIS ID
TVIS10007033
Fusion event
HBV-SPOCK1 integration
Validated
Yes
Detection method
PCR and Sanger sequencing
Data source
Curated
Sample type
Disease
Hepatocellular carcinoma (HCC)
Quality evaluation
Normal
Reported year
2016
PubMed ID
Virus Sequence
Virus name
HBV
Subtype
C
Reference genome
Not given
Start
2922
End
3142
Orient
+
Host Sequence
Chromosome
chr5
Cytoband
q31.2
Reference genome
End
136810801/137475112 (Hg38)
Orient
+
Location type
Intron
Target gene
Nearest miRNA
hsa-mir-10397/Upstream/1672037; hsa-mir-103a-1/Downstream/172460;
Nearest CpG islands
None/Target, chr5-CpG: 87/Upstream/1117758, chr5-CpG: 134/Downstream/23215
Upstream sequence
GGCGCCGCACGAACGTGGCCAGCGGCAGCACCTCGCGGTAGTGGCTGCGCAGCAGGGAGCGCACGGCTCGGCAGCGGGGAGCGCGCGGCATCGCGGGGGT
Downstream sequence
tggcatcttatgtgatacagtgggaagtataatacagaccatcactgctgtgatcttcctggcaaagtgtctgatcagagtccaatcgtgaagaagcaac
Reference
Kawai-Kitahata, F., et al. Comprehensive analyses of mutations and hepatitis B virus integration in hepatocellular carcinoma with clinicopathological features. J Gastroenterol ,2016,51(5): 473-486.