Journal
CANCERS
Volume 12, Issue 9, Pages -Publisher
MDPI
DOI: 10.3390/cancers12092416
Keywords
neurofibromatosis type 1; phenotype-modifier genes; systems biology
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Funding
- Fundo de Incentivo a Pesquisa (FIPE) of Hospital de Clinicas de Porto Alegre
- Conselho Nacional de Desenvolvimento Cientifico e Tecnologico (CNPq)
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Neurofibromatosis type (NF1) is a syndrome characterized by varied symptoms, ranging from mild to more aggressive phenotypes. The variation is not explained only by genetic and epigenetic changes in theNF1gene and the concept of phenotype-modifier genes in extensively discussed in an attempt to explain this variability. Many datasets and tools are already available to explore the relationship between genetic variation and disease, including systems biology and expression data. To suggest potential NF1 modifier genes, we selected proteins related to NF1 phenotype andNF1gene ontologies. Protein-protein interaction (PPI) networks were assembled, and network statistics were obtained by using forward and reverse genetics strategies. We also evaluated the heterogeneous networks comprising the phenotype ontologies selected, gene expression data, and the PPI network. Finally, the hypothesized phenotype-modifier genes were verified by a random-walk mathematical model. The network statistics analyses combined with the forward and reverse genetics strategies, and the assembly of heterogeneous networks, resulted in ten potential phenotype-modifier genes:AKT1, BRAF, EGFR, LIMK1, PAK1, PTEN, RAF1, SDC2, SMARCA4, andVCP. Mathematical models using the random-walk approach suggestedSDC2andVCPas the main candidate genes for phenotype-modifiers.
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