Within computational biology, an MA plot is an application of a Bland–Altman plot for visual representation of genomic data. The plot visualizes the differences between measurements taken in two samples, by transforming the data onto M (log ratio) and A (mean average) scales, then plotting these values.

MA plots are a widely used way to visualize genomic data. The M represents the difference between two conditions (fold-change), while the A represents the average intensity of the expression. Both values take on a \(\log_{2}\) transformation.

MA plots showing average logarithmically transformed counts per million (CPM) versus the log 2 fold change for pairwise comparisons between the Transplant 2H versus Naive (top row), Transplant 24H versus Naive (middle row), and Transplant 24H versus Transplant 2H …

Make MA-plot which is a scatter plot of log2 fold changes (M, on the y-axis) versus the average expression signal (A, on the x-axis). M = log2(x/y) and A = (log2(x) + log2(y))/2 = log2(xy)*1/2, where x and y are respectively the mean of the two groups being compared.

MA plots are commonly used to represent log fold-change versus mean expression between two treatments . This is visually displayed as a scatter plot with base-2 log fold-change along the y-axis and normalized mean expression along the x-axis.

Feb 6, 2022 · What is MA plot? MA plot is a 2-dimensional (2D) scatter plot used for visualizing gene expression datasets; MA plot visualize and identify gene expression changes from two different conditions (e.g. normal vs. treated) in terms of log fold change (M) on Y-axis and log of the mean of normalized expression counts of two conditions on X-axis.

MA-plot. MA plots display a log ratio (M) vs an average (A) in order to visualize the differences between two groups. In general we would expect the expression of genes to remain consistent between conditions and so the MA plot should be similar to the shape of a trumpet with most points residing on a y intercept of 0.