Expression analysis of TCGA samples
Basic Information
VIS ID
TVIS20004479
Fusion event
HPV-GPN1 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
L2
Start
2886
Integrated sequence
GAAAACGATGGAGACTCTTTGCCAACGTTTAAATGTGTGTCAGGACAAAATAC TAACACATTATGAAAATGATAGTACAGACCTACGTGACCATATAGA| |CTATTGGAAACACATGCGCCTAGA ATGTGCTATTTATTACAAGGCCAGAGAAATGGGATTTAAACATATTAACCACCAAGTGGTGCCAACACTG GCTG
Host Sequence
Chromosome
chr2
Cytoband
p23.2
Reference genome
Start
End
27869153/27646286 (Hg38)
Location type
Intronic
Target gene
miRNAs that regulate target gene
hsa-mir-151a-5p ; hsa-mir-98-5p ; hsa-mir-320a ; hsa-let-7a-5p ; hsa-mir-1915-3p ; hsa-mir-1976 ; hsa-mir-3157-5p ; hsa-mir-3622a-3p ; hsa-mir-3622b-3p ; hsa-mir-3653-5p ; hsa-mir-4279 ; hsa-mir-4691-3p ; hsa-mir-4722-3p ; hsa-mir-4726-3p ; hsa-mir-498 ; hsa-mir-6727-3p ; hsa-mir-6747-3p ; hsa-mir-6764-5p ; hsa-mir-6840-3p
Nearest miRNA
hsa-mir-1301/Upstream/2317565; hsa-mir-10b/Downstream/350081;
Nearest CpG islands
None/Target, chr2-CpG: 135/Upstream/63075, chr2-CpG: 78/Downstream/17106
Upstream sequence
gggggggggggggggggggggggggggggggggggggggggggggggggggggggggggggggggggggggggggagggaggggggggtgagaggggggg
Downstream sequence
ccatttcagcctcccaaagtgctgggattacaggcatgagccaccatgcccagccCCAGCTTGaaatttattctaagtatttaaccttcttcattactgt
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.