SLC9A7 _HNSC.png
Expression analysis of TCGA samples
Basic Information
VIS ID
TVIS20004297
Fusion event
HPV-SLC9A7 integration
Validated
Yes
Detection method
WGS, RNA-seq, Whole-Exome sequencing, PCR
Data source
Curated
Sample type
Disease
Head and neck squamous cell carcinoma (HNSCC)
Quality evaluation
Perfect
Reported year
2014
PubMed ID
Virus Sequence
Virus name
HPV
Subtype
HPV16
Reference genome
Region type
LCR
Start
7651
Integrated sequence
GCGTGCCAAATCCCTGTTTTCCTGACCTGCACTGCTTGCCAACCATTCCATTGTTTTTTACACTGCACTATGTGCAACTACTGAATCACTATGTACATTG| |TGTCATATAAAATAAATCACTATGCGCCAACGCCTTACATACCGCTGTTAGGCACATATTTTTGGCTTGTTTTAACTAACCTAATTGCATATTTGGCATA
Host Sequence
Chromosome
chrX
Cytoband
p11.23
Reference genome
End
46570642/46711207 (Hg38)
Location type
Intronic
Target gene
Nearest miRNA
hsa-mir-1587/Upstream/964083; hsa-let-7f-2/Downstream/876222;
Junction sequence
TAGCATCTGTTTTCCCAGGTCTATTTCATAGCTCACTC---[ACTATTTATTTTATATGAAATAGGTCTATT]---TCATATAAAATAAATCACTATGCGCCAACGCCT
* 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.
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