Expression analysis of TCGA samples
Basic Information
VIS ID
TVIS20004507
Fusion event
HPV-POU5F1B 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
2353
Integrated sequence
ATGTCATTTTTAACTGCA TTAAAAAGATTTTTGCAAGGCATACCTAAAAAAAATTGCATATTACTATATGGTGCAGCTAACACAGGTA AATCATTATT| |TGGTATGAGTTTAATGAAATTTCTGCAAGGGTCTGTAATATGTTTTGTAAATTCTAAAAG CCATTTTTGGTTACAACCATTAGCAGATGCCAAAATAGG
Host Sequence
Chromosome
chr8
Cytoband
q24.21
Reference genome
End
128396523/127384278 (Hg38)
Location type
Intronic
Target gene
miRNAs that regulate target gene
hsa-mir-7853-5p ; hsa-mir-105-5p ; hsa-mir-8485 ; hsa-mir-6848-3p ; hsa-mir-6843-3p ; hsa-mir-3663-5p ; hsa-mir-372-5p ; hsa-mir-371a-5p ; hsa-mir-616-5p ; hsa-mir-373-5p ; hsa-mir-371b-5p ; hsa-mir-4698 ; hsa-mir-8063 ; hsa-mir-3163 ; hsa-mir-590-3p ; hsa-mir-5692a ; hsa-mir-4282 ; hsa-mir-2681-5p ; hsa-mir-4433b-5p ; hsa-mir-4693-5p ; hsa-mir-4669 ; hsa-mir-3657 ; hsa-mir-4433a-5p ; hsa-mir-4726-3p ; hsa-mir-6764-5p ; hsa-mir-1915-3p ; hsa-mir-6840-3p ; hsa-mir-892a ; hsa-mir-4318
Nearest miRNA
hsa-mir-12123/Upstream/2562220; hsa-mir-10400/Downstream/411684;
Nearest CpG islands
None/Target, chr8-CpG: 109/Upstream/68385, chr8-CpG: 17/Downstream/349726
Upstream sequence
cttccattgctcacaccaacatggtcatgttcatccgtgactcctccctttgctctcacccccaatccaatctaagcaaacctcactggctttaccttca
Downstream sequence
GTGGAAAACAGctttgggaggccaaggtgggcagatcacgaggtgaggagattgagaccatcctggctaacatggtaaaaacccatctctactaaaaata
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.