Translating natural genetic variation to gene expression in a computational model of the Drosophila gap gene regulatory network.

ABSTRACT: Annotating the genotype-phenotype relationship, and developing a proper quantitative description of the relationship, requires understanding the impact of natural genomic variation on gene expression. We apply a sequence-level model of gap gene expression in the early development of Drosophila to analyze single nucleotide polymorphisms (SNPs) in a panel of natural sequenced D. melanogaster lines. Using a thermodynamic modeling framework, we provide both analytical and computational descriptions of how single-nucleotide variants affect gene expression. The analysis reveals that the sequence variants increase (decrease) gene expression if located within binding sites of repressors (activators). We show that the sign of SNP influence (activation or repression) may change in time and space and

SUBMITTER: Gursky VV 

PROVIDER: S-EPMC5595321 | biostudies-literature | 2017

REPOSITORIES: biostudies-literature