PDE10A _LIHC.png
Expression analysis of TCGA samples
Basic Information
VIS ID
TVIS10019784
Fusion event
HBV-PDE10A integration
Validated
No
Detection method
VirusFinder
Data source
Curated
Sample type
Nontumor
Disease
Hepatocellular carcinoma (HCC)
Quality evaluation
Normal
Reported year
2017
PubMed ID
29212479
Virus Sequence
Virus name
HBV
Reference genome
NC_003977
Start
1690
Integrated sequence
CTTCACCTCTGCACGTCGCATGGAGACCACCGTGAACGCCCACCAAATATTGCCCAAGGTCTTACATAAGAGGACTCTTGGACTCTCAGCAATGTCAACG| |ACCGACCTTGAGGCATACTTCAAAGACTGTTTGTTTAAAGACTGGGAGGAGTTGGGGGAGGAGATTAGGTTAAAGGTCTTTGTACTAGGAGGCTGTAGGC
Host Sequence
Chromosome
chr6
Cytoband
q27
Reference genome
GRCh37.55
Start
166322886/165909398 (Hg38)
End
166322886/165909398 (Hg38)
Location type
Intronic
Target gene
PDE10A
miRNAs that regulate target gene
hsa-mir-1287-3p ; hsa-mir-190a-3p ; hsa-mir-6867-5p ; hsa-mir-223-5p ; hsa-mir-511-3p ; hsa-mir-5011-5p ; hsa-mir-7151-5p ; hsa-mir-5681b ; hsa-mir-5579-5p ; hsa-mir-33a-3p
Nearest miRNA
hsa-mir-10398/Upstream/7144645; hsa-mir-1913/Downstream/599956;
Nearest TSS
ENST00000381078/Upstream/155209; ENST00000629776/Downstream/77098;
Nearest CpG islands
None/Target, chr6-CpG: 120/Upstream/54425, chr6-CpG: 25/Downstream/31051
Nearby gene
LINC00473
Upstream sequence
acaataatcttttaaagagatgtgaacaataattttaaaatgttatatctttaccatgtagttatcatttccagaggtctttatttttttttctgcaaat
Downstream sequence
TGTTAGTTGCTGTCTGTTGGACTCGGACACCGTAGCTTAGGACAAATAGGAGATACAATAGAAAATGGCTTCCTGGTTTTACGCATATTATGGCTGCAGG
Reference
Yoo, S., et al. A pilot systematic genomic comparison of recurrence risks of hepatitis B virus-associated hepatocellular carcinoma with low- and high-degree liver fibrosis. BMC Med ,2017, 15(1): 214.
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