C2CD3 _HNSC.png
Expression analysis of TCGA samples
Basic Information
VIS ID
TVIS20003880
Fusion event
HPV-C2CD3 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
E6
Start
6639
Host Sequence
Chromosome
chr11
Cytoband
q13.4
Reference genome
GRCh37/hg19
Start
73761906/74050861 (Hg38)
End
73761906/74050861 (Hg38)
Location type
Intron26
Fragile sites / regions
FRA11H
Target gene
C2CD3
miRNAs that regulate target gene
hsa-mir-335-5p
Nearest miRNA
hsa-mir-10392/Upstream/1267269; hsa-let-7a-2/Downstream/348376;
Nearest TSS
ENST00000527297/Upstream/1464; ENST00000542710/Downstream/20008;
Nearest CpG islands
None/Target, chr11-CpG: 30/Upstream/67104, chr11-CpG: 58/Downstream/119993
Upstream sequence
ACAACCAGATTTGAAATGGAATAAACACCTAGAGATGAGAAATTTATGTTATTACATTTTCATTTCACTTGTATAAATAATCCCTCAAATTTTATTTTCT
Downstream sequence
TTACATTTTAGGTGTGAGTACTTGATAAGAATTAAAGGACAGGAGTTCATCCGTCAAGTTCAAGCCAGTTACCCTCATCTACTTGAACAGGTAGGGCAAG
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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