CDH13 _LIHC.png
Expression analysis of TCGA samples
Basic Information
VIS ID
TVIS10007024
Fusion event
HBV-CDH13 integration
Validated
Yes
Detection method
PCR and Sanger sequencing
Data source
Curated
Sample type
Tumor
Disease
Hepatocellular carcinoma (HCC)
Quality evaluation
Normal
Reported year
2016
PubMed ID
26553052
Virus Sequence
Virus name
HBV
Subtype
C
Reference genome
Not given
Start
311
End
590
Orient
+
Host Sequence
Chromosome
chr16
Cytoband
q23.3
Reference genome
GRCh37/hg19
Start
83128248/83094643 (Hg38)
End
83128248/83094643 (Hg38)
Orient
-
Location type
Intron
Target gene
CDH13
miRNAs that regulate target gene
hsa-mir-155-5p ; hsa-mir-1-3p ; hsa-mir-181a-5p ; hsa-mir-4464 ; hsa-mir-4307 ; hsa-mir-7152-5p ; hsa-mir-3074-5p ; hsa-mir-31-3p ; hsa-mir-367-5p ; hsa-mir-1266-3p
Nearest miRNA
hsa-mir-1225/Upstream/405624; hsa-mir-11401/Downstream/413703;
Nearest TSS
ENST00000527434/Upstream/104345; ENST00000562307/Downstream/303344;
Nearest CpG islands
None/Target, chr16-CpG: 29/Upstream/466435, chr16-CpG: 67/Downstream/713164
Nearest cancer related gene
CDH13(TSG, No orient, 0)
Upstream sequence
ttcaggaagggagtataatcttgggagaggtgctgtcttcagcagaaggcaaggcctcttagtttatagctgtcagcctccaacttcccagtggctgaaa
Downstream sequence
gaatgaatgcttcagttccaaataaagggatctgagcagcaaatcccatcgtccTGTATTTTCATTGAAGTAGCATTTCATAACCAGTAACAACTGTCTT
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.
Curate