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dc.contributor.authorRIBEIRO, I. M.
dc.contributor.authorBORGES, C. C. H.
dc.contributor.authorSILVA, B. Z.
dc.contributor.authorARBEX, W. A.
dc.date.accessioned2018-12-26T23:42:00Z-
dc.date.available2018-12-26T23:42:00Z-
dc.date.created2018-12-26
dc.date.issued2018
dc.identifier.citationRevista de Informática Teórica e Aplicada, v. 25, n. 2, p. 85-92, 2018.
dc.identifier.urihttp://www.alice.cnptia.embrapa.br/alice/handle/doc/1102526-
dc.descriptionAbstract The genome-wide associations studies (GWAS) aims to identify the most influential markers in relation to the phenotype values. One of the substantial challenges is to find a non-linear mapping between genotype and phenotype, also known as epistasis, that usually becomes the process of searching and identifying functional SNPs more complex. Some diseases such as cervical cancer, leukemia and type 2 diabetes have low heritability. The heritability of the sample is directly related to the explanation defined by the genotype, so the lower the heritability the greater the influence of the environmental factors and the less the genotypic explanation. In this work, an algorithm capable of identifying epistatic associations at different levels of heritability is proposed. The developing model is a aplication of genetic programming with a specialized initialization for the initial population consisting of a random forest strategy. The initialization process aims to rank the most important SNPs increasing the probability of their insertion in the initial population of the genetic programming model. The expected behavior of the presented model for the obtainment of the causal markers intends to be robust in relation to the heritability level. The simulated experiments are case-control type with heritability level of 0.4, 0.3, 0.2 and 0.1 considering scenarios with 100 and 1000 markers. Our approach was compared with the GPAS software and a genetic programming algorithm without the initialization step. The results show that the use of an efficient population initialization method based on ranking strategy is very promising compared to other models.
dc.language.isoengeng
dc.rightsopenAccesseng
dc.subjectGWAS
dc.subjectSNP
dc.subjectGenetic Programming
dc.subjectRandom Forest
dc.subjectComputational Modeling
dc.subjectMathematical Modeling
dc.titleA genetic programming model for association studies to detect epistasis in low heritability data.
dc.typeArtigo de periódico
dc.date.updated2018-12-26T23:42:00Zpt_BR
dc.subject.nalthesaurusBioinformatics
riaa.ainfo.id1102526
riaa.ainfo.lastupdate2018-12-26
dc.contributor.institutionWAGNER ANTONIO ARBEX, CNPGL.
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