Wiley Interdiscip Rev Syst Biol Med - Layers of epistasis: genome-wide regulatory networks and network approaches to genome-wide association studies.

Tópicos

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Resumo

The conceptual foundation of the genome-wide association study (GWAS) has advanced unchecked since its conception. A revision might seem premature as the potential of GWAS has not been fully realized. Multiple technical and practical limitations need to be overcome before GWAS can be fairly criticized. But with the completion of hundreds of studies and a deeper understanding of the genetic architecture of disease, warnings are being raised. The results compiled to date indicate that risk-associated variants lie predominantly in noncoding regions of the genome. Additionally, alternative methodologies are uncovering large and heterogeneous sets of rare variants underlying disease. The fear is that, even in its fulfillment, the current GWAS paradigm might be incapable of dissecting all kinds of phenotypes. In the following text, we review several initiatives that aim to overcome these limitations. The overarching theme of these studies is the inclusion of biological knowledge to both the analysis and interpretation of genotyping data. GWAS is uninformed of biology by design and although there is some virtue in its simplicity, it is also its most conspicuous deficiency. We propose a framework in which to integrate these novel approaches, both empirical and theoretical, in the form of a genome-wide regulatory network (GWRN). By processing experimental data into networks, emerging data types based on chromatin immunoprecipitation are made computationally tractable. This will give GWAS re-analysis efforts the most current and relevant substrates, and root them firmly on our knowledge of human disease.

Resumo Limpo

conceptu foundat genomewid associ studi gwas advanc uncheck sinc concept revis might seem prematur potenti gwas fulli realiz multipl technic practic limit need overcom gwas can fair critic complet hundr studi deeper understand genet architectur diseas warn rais result compil date indic riskassoci variant lie predomin noncod region genom addit altern methodolog uncov larg heterogen set rare variant under diseas fear even fulfil current gwas paradigm might incap dissect kind phenotyp follow text review sever initi aim overcom limit overarch theme studi inclus biolog knowledg analysi interpret genotyp data gwas uninform biolog design although virtu simplic also conspicu defici propos framework integr novel approach empir theoret form genomewid regulatori network gwrn process experiment data network emerg data type base chromatin immunoprecipit made comput tractabl will give gwas reanalysi effort current relev substrat root firm knowledg human diseas

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