hsa-mir-4709-3p _HNSC.png
PHLDB2 _HNSC.png
Expression analysis of TCGA samples
Basic Information
VIS ID
TVIS20004036
Fusion event
HPV-PHLDB2 integration
Validated
No
Detection method
RNA-Seq
Data source
Curated
Sample type
Tumor
Disease
Head and neck squamous cell carcinoma (HNSCC)
Quality evaluation
Normal
Reported year
2018
PubMed ID
28928286
Virus Sequence
Virus name
HPV
Subtype
HPV33
Reference genome
Not given
Gene
E7
Start
3437
Host Sequence
Chromosome
chr3
Cytoband
q13.2
Reference genome
GRCh37/hg19
Start
111451422/111732575 (Hg38)
End
111451422/111732575 (Hg38)
Location type
Exon1
Target gene
PHLDB2
miRNAs that regulate target gene
hsa-mir-16-5p ; hsa-mir-1-3p ; hsa-mir-432-5p ; hsa-mir-376a-5p ; hsa-mir-382-3p ; hsa-mir-29c-3p ; hsa-mir-148a-3p ; hsa-mir-148b-3p ; hsa-mir-152-3p ; hsa-mir-202-5p ; hsa-mir-298 ; hsa-mir-4709-3p
Nearest miRNA
hsa-let-7g/Upstream/2129678; hsa-mir-12124/Downstream/380226;
Nearest TSS
ENST00000440867/Upstream/78; ENST00000478922/Downstream/126605;
Nearest CpG islands
None/Target, chr3-CpG: 148/Upstream/57878, chr3-CpG: 59/Downstream/126815
Upstream sequence
TGTACCTGGAAGCTCATAGTCCTGGCAGAGCTGGCTGCTGTTGTGAGTCAGGAAGATGTTCCACAGGGAAGTGAGCTGGTGACAGCCTCCATGGGAAGTC
Downstream sequence
AAACCTGTGTTAATGTGTCTTCCCAACATCCCACTCTCTTCAGCAATCGCTGGAACAGCCATGGGCCATCCCTGCTGAGTCAGGAAAGAAGCTGAGGGAA
Reference
Koneva, L. A., et al. HPV Integration in HNSCC Correlates with Survival Outcomes, Immune Response Signatures, and Candidate Drivers. Mol Cancer Res ,2018,16(1): 90-102.
Curate