Genome-Wide Gene Expression (Transcriptomics) analyses using RNAseq technology are briefly discussed with some examples including results from our own pig experiments. These tools include FunctSNP, Postgwas and NCBI2R which are briefly discussed. It is emphasized that tools that link genetic variants to their functions, pathways and other biological roles will become even more important in the future. Further, the Systems genomic BLUP ( sgBLUP) prediction method is introduced in this paper as a next generation WGP or GS tool that can account for and differentiate SNPs with known biological roles in the phenotypic or disease outcomes and potentially increase the accuracy of prediction. These methods effectively address the problems of GWAS that have no ability to model and analyze genome-wide genetic interactions and thus do not capture any epistatic variance that could explain part of the missing heritability.
Genome-Wide Epistasis Association (GWEA) and Weighted Interaction SNP Hub (WISH) network methods are introduced here to unravel complex trait genetics. Beginning with a brief review of current progress and challenges in livestock GWAS, WGP and GS, opportunities for next generation methods are introduced that unravel the underlying systems genetics of complex traits and provide biologically meaningful and accurate predictions. Livestock genomics has gone through a paradigm shift since the advent of genome sequencing that includes Genome-Wide Association Studies (GWAS), Whole Genome Predictions (WGP) and Genomic Selection (GS).
0 kommentar(er)
