Fig. 5

GEF-H1 and IRF5 control transcriptional programs initiated by MDP. a PCA analysis of variant genes in which input samples are clustered in non-treated (open) and N-glycolyl-MDP stimulated (closed) BMDMs from WT (yellow circles), Arhgef2^−/− (pink circles), and Irf5^−/− (green circles) mice. b Heat map showing the differential expressed genes (DEG) upon N-glycolyl-MDP stimulation between BMDMs from WT, Arhgef2^−/− and Irf5^−/− mic. Scale represents Median centered log2FPKM. c Heat map representation of Cluster I shows the N-glycolyl-MDP regulated genes in untreated WT and N-glycolyl-MDP treated WT, Arhgef2^−/− or Irf5^−/− mice macrophages. Color scales represent d GSEA/MSigDB analysis showing significant pathways in Hallmark and Canonical pathway (KEGG) categories. DEGs were identified using an FDR cutoff <0.05 and a fold change cutoff >2 by Cuffdiff v1.06 in DNAnexus e, Gene expression analysis by qRT-PCR of Pglyrp1, GzmE, GzmD, and Serpine-1 in BMDMs derived from WT (black square), Arhgef2^−/−(blue square), Irf5^−/− (yellow square), and Ιkkε^−/− (pink square), mice after 18 h stimulation with N-glycolyl-MDP or untreated control (UT). The data are presented as the mean±SEM. Statistical significance was tested with Student’s t-test *P < 0.05, **P < 0.001, ***P < 0.0001 (n = 3). Source data are provided as a Source Data file. RNA sequencing data that support the findings of this study have been deposited in GEO with the accession codes GSE126749. http://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE126749