Expression analysis of TCGA samples
Basic Information
VIS ID
TVIS20004547
Fusion event
HPV-SLITRK2 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
975
Integrated sequence
CATGGCTGATCCTGCAGGTACCAATGGGGAAGAGGGTACGGGATGTA ATGGATGGTTTTATGTAGAGGCTGTAGTGGAAAAAAAAACAGGGGATGCTAT| |ATCAGATGACGAGAACGA AAATGACAGTGATACAGGTGAAGATTTGGTAGATTTTATAGTAAATGATAATGATTATTTAACACAGGCA GAAACAGAGA
Host Sequence
Chromosome
chrX
Cytoband
q27.3
Reference genome
End
144778296/145696778 (Hg38)
Location type
Intronic
Fragile sites / regions
Target gene
Nearest miRNA
hsa-let-7f-2/Upstream/4770547; hsa-mir-105-1/Downstream/295972;
Nearest CpG islands
None/Target, chrX-CpG: 62/Upstream/64978, chrX-CpG: 98/Downstream/121067
Upstream sequence
TTTCTAGCCATGATGTCCTCTCTCTTTGGACATTGTGGACACTTGAGTGAGGTTTTTTTAAGCTGCTCACATGCTGAAAGCTTATGTTAAACCCTCTCCC
Downstream sequence
AGCTCAATTTGGAAGAAAAGAACCAGTGAGGAAACAATCTTTAATGTTTGCAATAAAAGCAAACCGAGTTCAGAAATAAAAAGGAAATATAGGACAGCTT
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.