Manhattan plot


A Manhattan plot is a type of plot, usually used to display data with a large number of data-points, many of non-zero amplitude, and with a distribution of higher-magnitude values. The plot is commonly used in Genome-wide [association study|genome-wide association studies] to display significant SNPs.
It gains its name from the similarity of such a plot to the Manhattan skyline: a profile of skyscrapers towering above the lower level "buildings" which vary around a lower height.

GWAS

In GWAS Manhattan plots, genomic coordinates are displayed along the x-axis, with the negative logarithm of the association p-value for each single nucleotide polymorphism displayed on the y-axis, meaning that each dot on the Manhattan plot signifies an SNP. Because the strongest associations have the smallest p-values, their negative logarithms will be the greatest. The different colors of each block usually show the extent of each chromosome.