PLCXD2 _HNSC.png
Expression analysis of TCGA samples
Basic Information
VIS ID
TVIS20005043
Fusion event
HPV-PLCXD2 integration
Validated
No
Detection method
WGS, RNA-seq, Whole-Exome sequencing, PCR
Data source
Curated
Sample type
Tumor
Disease
Head and neck squamous cell carcinoma (HNSCC)
Quality evaluation
Perfect
Reported year
2014
PubMed ID
25313082
Virus Sequence
Virus name
HPV
Subtype
HPV33
Reference genome
Not given
Gene
E1
Start
2061
Host Sequence
Chromosome
chr3
Cytoband
q13.2
Reference genome
GRCh37/hg19
Start
111499095/111780248 (Hg38)
End
111499095/111780248 (Hg38)
Location type
Intronic
Target gene
PLCXD2
miRNAs that regulate target gene
hsa-mir-1-3p ; hsa-mir-16-5p ; hsa-mir-92a-3p ; hsa-mir-1273e ; hsa-mir-6783-3p ; hsa-mir-1343-3p ; hsa-mir-503-3p ; hsa-mir-6861-5p ; hsa-mir-6742-3p ; hsa-mir-6852-5p ; hsa-mir-939-3p ; hsa-mir-4291 ; hsa-mir-193a-5p ; hsa-mir-205-5p ; hsa-mir-7157-5p ; hsa-mir-4310
Nearest miRNA
hsa-let-7g/Upstream/2177351; hsa-mir-12124/Downstream/332553;
Nearest TSS
ENST00000440867/Upstream/47751; ENST00000478922/Downstream/78932;
Nearest CpG islands
None/Target, chr3-CpG: 148/Upstream/105551, chr3-CpG: 59/Downstream/79142
Junction sequence
GCAGGAGGGGATTTGCTAACGCAGGAGTGGGCTC---CTATTTTTGCTTGTGAGTTACTTTTTAAAAATGCAGCAGCATTACTATTTGAATCTGCAAGTTGTGC
* Color:  Human Sequence / Virus Sequence / Overlapped sequence / Unknown sequence
Reference
Parfenov, M., et al. Characterization of HPV and host genome interactions in primary head and neck cancers. Proc Natl Acad Sci U S A,2014,111(43): 15544-15549.
Curate