Fig. 2: Differential gene expression in ALS versus control iPSMNs.
From: Integrated transcriptome landscape of ALS identifies genome instability linked to TDP-43 pathology
a Volcano plot of differential gene expression in ALS versus control iPSMNs using the Wald test. b Functionally overrepresented terms in up-regulated (red) and down-regulated (blue) differentially expressed genes using the hypergeometric test. c GSEA of signal transduction by p53 (GO:0072331, n = 264) in ALS versus control using the permutation test. NES, normalized enrichment score. d PROGENy signalling pathway activities in ALS versus control using the weighted mean method. Pathways increased in ALS are red and pathways decreased are blue. *** represents P < 0.0001 and *P < 0.05 (p53 p < 0.001, MAPK p < 0.001, WNT p = 0.03). e Expression changes of p53 signalling pathway genes in ALS versus control according to their PROGENy weights. Genes increasing p53 activity in ALS are red whilst genes decreasing p53 activity in ALS are blue. f Activities of 429 transcription factors in DoRothEA inferred from their regulon expression changes in ALS versus control. The normalised enrichment score in ALS versus control (x-axis) is plotted according to the enrichment test p-value (y-axis).
