Basic Information
VIS ID
TVIS20003979
Fusion event
HPV-LINC00320 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
HPV16
Reference genome
Not given
Gene
E7
Start
740
Host Sequence
Chromosome
chr21
Cytoband
q21.1
Reference genome
GRCh37/hg19
Start
22171481/20799163 (Hg38)
End
22171481/20799163 (Hg38)
Location type
Intron1
Target gene
LINC00320
Nearest miRNA
hsa-let-7c/Upstream/2112999; hsa-mir-155/Downstream/2280121;
Nearest TSS
ENST00000624081/Upstream/540343; ENST00000486367/Downstream/3900;
Nearest CpG islands
None/Target, chr21-CpG: 261/Upstream/2553606, chr21-CpG: 89/Downstream/197942
Upstream sequence
CTTTACCATGCTCAGCTTAAGTTAAACATGTTTAATCTCTTAATCTATGTCAAGTGGTAGAACTGATAACCCCAAGAGATTAACCGTCATCTCCACTTTT
Downstream sequence
CCAGCTCCTGGAATACTATATATCCTGAATCACCTAAGACAGGGGTCCCAAATCCCTAGGCCATggaccacacagcaggaggtgagctgcgagtattact
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.
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