Mapping information-rich genotype-phenotype landscapes with genome-scale Perturb-seqdoi:10.1101/2021.12.16.473013Joseph M ReplogleReuben A SaundersAngela N PogsonJonathan S Weissman
Genotype-phenotype mapping plays an important role in the evolutionary process. In this paper, we argue that an adaptive mapping could help to solve a special class of highly epistatic problems known as rotated problems. Our conjecture is that co-evolving the mapping represented by a population ...
摘要: The mapping between the genetic make-up and the phenotype of an organism is both complex and nonlinear, but the recognition that certain computer programs perform exactly such operations allows us to use the knowledge of the computer science domain to make progress in problems of genetics....
Genotype-to-phenotype maps and the related fitness landscapes that include epistatic interactions are difficult to measure because of their high dimensional structure. Here we construct such a map using the recently collected corpora of high-throughput sequence data from the 75 base pairs long mutagen...
sativa and its importance in explaining the heterogeneity of genetic architecture associated with most complex traits in rice underscores the value of using a world- wide diversity panel to untangle the genotype—phenotype associa- tions in the species. As demonstrated by our study, no single GWAS ...
Microbial phenotypes are typically due to the concerted action of multiple gene functions, yet the presence of each gene may have only a weak correlation with the observed phenotype. Hence, it may be more appropriate to examine co-occurrence between sets of genes and a phenotype (multiple-to-on...
were present in at least two-thirds of the studies contributing to the phenotype analysis. The method summarizes effect sizes across the multiple studies by computing the mean of the effect sizes weighted by the inverse variance in each individual study....
This integration, implemented with high-dimensional statistical reasoning, can aid in our understanding of how genotype is translated toward phenotype. As a demonstration of method, we implemented the transpiration and soil-plant-atmosphere measurements of a tomato introgression line population into the ...
Additional Information Supplementary information accompanies this paper at http://www.nature.com/srep Competing financial interests: The authors declare no competing financial interests. How to cite this article: Santos, G. et al. Model-based genotype-phenotype mapping used to investigate gene ...
Overall, these data show that integrating stage, organ, tissue, and cell type information with genotype and gene expression, we were able to determine the spatiotemporal context of 2578 eQTL signals (Supplementary Data 4). Multigenic eQTL signals are enriched for being spatiotemporal regulated ...