Expression analysis of TCGA samples
Basic Information
VIS ID
TVIS20004548
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
2987
Integrated sequence
TATTGGAAACACATGCGCCTAGA ATGTGCTATTTATTACAAGGCCAGAGAAATGGGATTTAAACATATTAACCACCAAGTGGTGCCAACACTG GCTGT| |ATCAAAGAATAAAGCATTACAAGCAATTGAACTGCAACTAACGTTAGAAACAATATATAACTCAC AATATAGTAATGAAAAGTGGACATTACAAGACGT
Host Sequence
Chromosome
chrX
Cytoband
q27.3
Reference genome
End
144789749/145708231 (Hg38)
Location type
Intronic
Fragile sites / regions
Target gene
Nearest miRNA
hsa-let-7f-2/Upstream/4782000; hsa-mir-105-1/Downstream/284519;
Nearest CpG islands
None/Target, chrX-CpG: 62/Upstream/76431, chrX-CpG: 98/Downstream/109614
Upstream sequence
ccggaggagaggatttgagtcggagtagtttctttgggtgctaatccttaggagcattggtgacagaaaggggagctgagtcagagatgggaaaacagac
Downstream sequence
tggctatatatatatttggctatagtttacatatatactatatatactgtatatactatagtatatagtatacatatatatgtgtgtgtgtatatatata
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.