Expression analysis of TCGA samples
Basic Information
VIS ID
TVIS20004509
Fusion event
HPV-MYC 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
2754
Integrated sequence
GTTTACATTTCCTAATGAGTTTCCATTTGACGAAAACGGAAAT CCAGTGTATGAGCTTAATGATAAGAACTGGAAATCCTTTTTCTCAAGGACGTGGTC| |CAGATTAAGTTTGC ACGAGGACGAGGACAAGGAAAACGATGGAGACTCTTTGCCAACGTTTAAATGTGTGTCAGGACAAAATAC TAACACATTATGAA
Host Sequence
Chromosome
chr8
Cytoband
q24.21
Reference genome
End
128746603/127734357 (Hg38)
Location type
Intronic
Target gene
miRNAs that regulate target gene
hsa-mir-24-3p ; hsa-let-7a-5p ; hsa-let-7g-5p ; hsa-mir-34a-5p ; hsa-mir-98-5p ; hsa-let-7c-5p ; hsa-mir-26a-5p ; hsa-mir-145-5p ; hsa-mir-21-5p ; hsa-mir-34b-5p ; hsa-mir-34c-5p ; hsa-mir-17-5p ; hsa-mir-20a-5p ; hsa-mir-34b-3p ; hsa-mir-378a-3p ; hsa-mir-371a-3p ; hsa-mir-373-3p ; hsa-mir-451a ; hsa-mir-33b-5p ; hsa-mir-135a-5p ; hsa-mir-449c-5p ; hsa-mir-429 ; hsa-mir-335-5p ; hsa-let-7f-5p ; hsa-mir-320b ; hsa-mir-744-5p ; hsa-mir-423-5p ; hsa-mir-320a ; hsa-let-7b-5p ; hsa-mir-148a-3p ; hsa-mir-212-3p ; hsa-mir-494-3p ; hsa-mir-155-5p ; hsa-mir-33a-5p ; hsa-mir-1294 ; hsa-mir-30a-3p ; hsa-mir-30d-3p ; hsa-mir-30e-3p ; hsa-mir-323a-3p ; hsa-mir-449a ; hsa-mir-940 ; hsa-mir-1304-5p ; hsa-mir-1827 ; hsa-mir-2682-5p ; hsa-mir-548au-3p ; hsa-mir-8074 ; hsa-mir-4426 ; hsa-mir-4647 ; hsa-mir-4662b ; hsa-mir-4289 ; hsa-mir-16-2-3p ; hsa-mir-195-3p ; hsa-mir-5197-5p ; hsa-mir-6507-3p ; hsa-mir-487b-3p ; hsa-mir-7-5p ; hsa-mir-93-5p ; hsa-mir-324-3p ; hsa-mir-184 ; hsa-mir-126-5p ; hsa-mir-25-3p ; hsa-mir-92a-2-5p ; hsa-mir-92a-1-5p ; hsa-mir-19b-2-5p ; hsa-mir-19b-1-5p ; hsa-mir-19a-3p ; hsa-mir-106b-5p ; hsa-mir-92a-3p ; hsa-mir-92b-3p ; hsa-mir-516a-5p ; hsa-mir-455-3p ; hsa-mir-4677-3p ; hsa-mir-4510 ; hsa-mir-375 ; hsa-mir-3159 ; hsa-mir-30d-5p ; hsa-mir-30c-5p ; hsa-mir-23a-3p ; hsa-mir-222-3p ; hsa-mir-196b-5p ; hsa-mir-196a-5p ; hsa-mir-16-5p ; hsa-mir-151a-5p ; hsa-mir-148a-5p ; hsa-mir-125a-3p ; hsa-mir-125a-5p ; hsa-mir-1248 ; hsa-let-7i-5p ; hsa-let-7e-5p ; hsa-let-7d-5p ; hsa-mir-302a-5p ; hsa-mir-3919 ; hsa-mir-4699-3p ; hsa-mir-4797-5p ; hsa-mir-6765-5p ; hsa-mir-622 ; hsa-mir-135b-5p ; hsa-mir-889-5p ; hsa-mir-4668-5p ; hsa-mir-4762-5p ; hsa-mir-186-5p ; hsa-mir-3133 ; hsa-mir-130a-3p ; hsa-mir-25-5p ; hsa-mir-185-5p ; hsa-mir-29a-3p ; hsa-mir-561-3p ; hsa-mir-34a-3p ; hsa-mir-599 ; hsa-mir-29b-3p ; hsa-mir-129-2-3p ; hsa-mir-3157-5p ; hsa-mir-377-5p ; hsa-mir-4316 ; hsa-mir-4432 ; hsa-mir-4691-3p ; hsa-mir-512-5p ; hsa-mir-513c-5p ; hsa-mir-514b-5p ; hsa-mir-586 ; hsa-mir-6086 ; hsa-mir-655-5p
Nearest miRNA
hsa-mir-12123/Upstream/2912299; hsa-mir-10400/Downstream/61605;
Nearest CpG islands
None/Target, chr8-CpG: 109/Upstream/123, chr8-CpG: 250/Downstream/1202
Nearest cancer related gene
MYC(OG, No orient, 0)
Upstream sequence
gggattaaattcagatctccctgaatttcccTTAAAATTGAAATTCCCTGAATTTCCCTTAAATCATAATGCACACAGCAAACCACATGAAATGCCAGAT
Downstream sequence
ACCCATCTTGAACAGCGTACATGCTATACACGCACCCCTTTCCCCCGAATTGTTTTCTCTTTTGGAGGTGGTGGAGGGAGAGAAAAGTTTACTTAAAATG
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.