Expression analysis of TCGA samples
Basic Information
VIS ID
TVIS20004540
Fusion event
HPV-MACROD2 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
2406
Integrated sequence
ATTGCATATTACTATATGGTGCAGCTAACACAGGTA AATCATTATTTGGTATGAGTTTAATGAAATTTCTGCAAGGGTCTGTAATATGTTTTGTAAATT| |CTAAAAG CCATTTTTGGTTACAACCATTAGCAGATGCCAAAATAGGTATGTTAGATGATGCTACAGTGCCCTGTTGG AACTACATAGATGACAATTTA
Host Sequence
Chromosome
chr20
Cytoband
p12.1
Reference genome
Start
End
14886856/14906210 (Hg38)
Location type
Intronic
Target gene
miRNAs that regulate target gene
hsa-mir-1238-3p ; hsa-mir-670-3p ; hsa-mir-4469 ; hsa-mir-486-5p ; hsa-mir-660-3p ; hsa-mir-4667-3p ; hsa-mir-1470 ; hsa-mir-618 ; hsa-mir-502-5p ; hsa-mir-4786-3p ; hsa-mir-1915-5p ; hsa-mir-6841-3p ; hsa-mir-153-5p ; hsa-mir-6808-3p ; hsa-mir-7973 ; hsa-mir-486-3p ; hsa-mir-4252 ; hsa-mir-4725-5p ; hsa-mir-6852-5p ; hsa-mir-6791-5p ; hsa-mir-4292 ; hsa-mir-504-5p
Nearest miRNA
hsa-mir-103a-2/Upstream/4256515; hsa-mir-1-1/Downstream/3564405;
Nearest CpG islands
Upstream sequence
TGAAAGTCACtttttttaaaattatactttaagttctagggtacatgtgcacaacgtgcaggtttgttacatatgtatatatgtgccatgttggAAAGTC
Downstream sequence
AAgctgtgcgtgttagctcatgcctataatcctagcactttgggaggccaaggagggtgtgtcacttgaggtcaggggttcaagaccagcctggccaata
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.