Additional file 2 of Large-scale gene network analysis reveals the significance of extracellular matrix pathway and homeobox genes in acute myeloid leukemia: an introduction to the Pigengene package and its applications

Abstract

Table S2. Overrepresented pathways. The canonical pathways that are overrepresented in the modules are available as part of the online supplementary materials. Each sheet in the excel file corresponds to a module. The statistics for each pathway (gene set) is reported on one row, in particular, the p-value of a hypergeometric test with the null hypothesis that the genes from the pathway were observed in the module by chance. The other columns include the name of the pathway (Set Name), the number of genes observed in the module (In Module), the number of the genes from the pathway that are present in our pool of 9,166 genes (Set Size), percentage of those genes that are in the module (% In Module), the name of the collection in MSIGDB [83] (Source), and a link to more information on the pathway (Description). There was no statistically significant pathway with p-value less than 10−4 for the modules that are not included. (XLS 131 kb