GAM-clustering

GAMclust is a tool for metabolic GAM-clustering analysis of

• bulk RNA-seq data (tutorial),
• single cell RNA-seq data (tutorial),
• spatial RNA-seq data (tutorial).

The GAM-clustering method reveals metabolic variability within dataset using a novel network-based computational approach. This method utilizes cellular transcriptional profiles as proxies. The metabolic network of reactions is presented as a graph. This graph has vertices corresponding to metabolites and the edges corresponding to the reactions with the expressed genes. In the graph the method tries to find a set of connected subgraphs. Genes of each connected subgraph have highly correlated expression pattern.

Interactive results of GAM-clustering analysis of ImmGen Open Source and Tabula Muris data can be explored here, details are in Gainullina et al, 2023.