Genome variation and conserved regulation identify genomic regions responsible for strain specific phenotypes of metabolic syndrome in rats

ABSTRACT: We developed a method to prioritise strain-specific haplotypes by integrating genomic variation and genomic regulatory data predicted to be involved in specific phenotypes. To identify genomic regions associated with metabolic syndrome (MetS), a disorder of energy utilization and storage affecting several organ systems, we compared two Lyon rat strains, LH/Mav which is susceptible to MetS, and LL/Mav, which is susceptible to obesity as an intermediate MetS phenotype, with a third strain (LN/Mav) that is resistant to both MetS and obesity. Applying a novel metric, we ranked the identified strain-specific haplotypes using evolutionary conservation of the occupancy three liver-specific transcription factors (HNF4A, CEBPA, and FOXA1) in five rodents including rat. We generated RNA-seq expres

INSTRUMENT(S): Illumina HiSeq 2000

ORGANISM(S): Rattus norvegicus

SUBMITTER: Paul Flicek 

PROVIDER: E-MTAB-5939 | biostudies-arrayexpress |

REPOSITORIES: biostudies-arrayexpress