SERINC5 _LIHC.png
Expression analysis of TCGA samples
Basic Information
VIS ID
TVIS10006384
Fusion event
HBV-SERINC5 integration
Validated
Yes
Detection method
invPCR +Sequencing
Data source
Curated
Sample type
Tumor
Disease
Hepatocellular carcinoma (HCC)
Quality evaluation
Normal
Reported year
2016
PubMed ID
27453547
Virus Sequence
Virus name
HBV
Reference genome
V01460.1
Host Sequence
Chromosome
chr5
Cytoband
q14.1
Reference genome
GRCh38
Start
80192447 (Hg38)
End
80192447 (Hg38)
Location type
Intron
Target gene
SERINC5
miRNAs that regulate target gene
hsa-mir-145-5p ; hsa-mir-16-5p ; hsa-mir-3926 ; hsa-mir-4753-5p ; hsa-mir-6796-3p ; hsa-mir-4484 ; hsa-mir-6768-3p ; hsa-mir-548an ; hsa-mir-9-5p
Nearest miRNA
hsa-mir-10397/Upstream/7313784; hsa-mir-103a-1/Downstream/2647708;
Nearest TSS
ENST00000502646/Upstream/25267; ENST00000511881/Downstream/62751;
Nearest CpG islands
None/Target, chr5-CpG: 87/Upstream/156782, chr5-CpG: 103/Downstream/63103
Upstream sequence
CTCCCATGAGACTCTTCCCTTCCTCAGGGCTGTCCTCAAATGGAACTTGGGCCTTAAGTGAATCAAACTGTGTATCTCCCATATGTCATTTTTTTTTTTT
Downstream sequence
TAGCAGAAAATAAAGTACCTTAATTTATCCACCCACAGAAAGTTTTTCAGATGGGGTGGGAAGGAATGGAGAGAGAATGTGTCTATGAGCTTCCAGCGCT
Reference
Mason, W. S., et al. HBV DNA Integration and Clonal Hepatocyte Expansion in Chronic Hepatitis B Patients Considered Immune Tolerant. Gastroenterology,2016, 151(5): 986-998 e984.
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