Expression analysis of TCGA samples
Basic Information
VIS ID
TVIS20004527
Fusion event
HPV-BCAR4 integration
Validated
Yes
Detection method
Multiplex RT-PCR, APOT assay
Data source
Curated
Sample type
Disease
Cervical carcinoma (CC)
Quality evaluation
Normal
Reported year
2014
PubMed ID
Virus Sequence
Virus name
HPV
Subtype
HPV16
Reference genome
Gene
E1
Start
2198
Integrated sequence
AAGGATTGTGCAACAATGTGTAGACATTATA AACGAGCAGAAAAAAAACAAATGAGTATGAGTCAATGGATAAAATATAGATGTGATAGGGTAGATGAT| |GG AGGTGATTGGAAGCAAATTGTTATGTTTTTAAGGTATCAAGGTGTAGAGTTTATGTCATTTTTAACTGCA TTAAAAAGATTTTTGCAAGGCATACC
Host Sequence
Chromosome
chr16
Cytoband
p13.13
Reference genome
Start
End
11918118/11824261 (Hg38)
Location type
Intronic
Target gene
Nearest miRNA
hsa-mir-1225/Upstream/517734; hsa-mir-11401/Downstream/896060;
Nearest CpG islands
None/Target, chr16-CpG: 29/Upstream/26596, chr16-CpG: 42/Downstream/26947
Nearest cancer related gene
BCAR4(OG, No orient, 0)
Upstream sequence
TTTAGATCCCATTTTTATCACTTAGCATTATGGTTTTAAATATTCTGTATCTGTAGGAGAAGCTAACCCAGCACTCAcagtggacatacaatgtgaaacg
Downstream sequence
gcttgaggcaggacaatctcttgaaccccagaggcagaggttgcagtgagctgagatcacaccactgcactccagcctgggcaacatggcaagactctat
Reference
Lu, X., et al. Multiple-integrations of HPV16 genome and altered transcription of viral oncogenes and cellular genes are associated with the development of cervical cancer. PLoS One ,2014,9(7): e97588.