Bayesian Sparse Linear Mixed Model (BSLMM) is a mixed model of linear mixed model (LMM) and sparse regression model. Both linear mixed models (LMMs) and sparse regression models are widely used in genetic applications, including multi-gene modeling in genome-wide association studies. BSLMM assumes that the effect of genes on phenotype obeys a mixed distribution composed of two normal distributions, and the degree of mixing of the two normal distributions is determined by different mixing ratios. It should be noted that for case-control studies (assuming the phenotype code is 0-1), BSLMM can directly treat 0-1 as a continuous variable and process it through a linear model, called Linear-BSLMM, or process Probit links function through a generalized linear model, called Probit—BSLMM. The BSLMM phenotype prediction model method can improve the accuracy of genome-wide genetic locus information.
Genome-wide association study (GWAS) has found that tens of thousands of single nucleotide polymorphisms (SNPs) are associated with hundreds of complex diseases. It provides an unprecedented perspective for the study of the genetic basis of phenotypic variation. In addition, in the analysis of cross-omics data, phenotype prediction is also considered to be a key step in integrating functional genome sequencing research with GWAS.A more efficient and interpretable gene set test can be constructed in GWAS, and SNP weights can be set to infer it from the prediction model and used for the mapping study of expression quantitative traits. Researchers have invented many phenotypic prediction model methods, such as BSLMM, etc., to improve the prediction accuracy by using the information of the genetic locus of the whole genome.
Fig 1. Comparison of PVE estimates from LMM (blue), BVSR (red), and BSLMM (purple) in two simulation scenarios. (Xiang Z, Peter C, et al. 2013) Model
Using Bayesian sparse linear mixed model phenotype prediction model method can improve the prediction accuracy of genome-wide genetic locus information. The success of GWAS has greatly promoted the use of genetic information (except environmental and lifestyle information) to carry out complex disease risk prediction and assessment.
CD ComputaBio uses Bayesian Sparse Linear Mixed Model phenotypic prediction model method to help you improve the prediction accuracy of genome-wide genetic locus information. In addition, we also provide phenotypic prediction services with other prediction model such as iner mixed model (LMM), multiple best linear unbiased prediction (MultiBLUP), elastic net (ENET), spike-and-slab Lasso GLMs (ssLasso), Bayesian variable selection regression (BVSR), Dirichlet process regression (DPR) and so on. If you have any questions, please feel free to contact us, we look forward to working with you, and we will provide you with satisfactory services.
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