Based on the potential obesogenic roles of ADIPOQ, CETP, FTO, LEP, and LEPR genes single nucleotide polymorphisms (SNPs), the aim of the current study was to identify obesity risk markers through MAFs estimation, genetic association and BMI raising risk effect analysis using a set of candidate genetic variants in a BMI stratified Pakistani cohort. This evidence concerns the gene LEP and obesity due to melanocortin 4 receptor deficiency.