Fig. 7: Identification of the regulatory modes underlying the primary and secondary infections. | Nature Communications

Fig. 7: Identification of the regulatory modes underlying the primary and secondary infections.

From: Epithelial cells maintain memory of prior infection with Streptococcus pneumoniae through di-methylation of histone H3

Fig. 7

A Contribution of groups of variables to the definition of factors/dimensions. Groups of variables constitute the multiple factor analysis (MFA) input matrix and describe the genes (TOME = Transcriptome, DEG = Differentially expressed gene), the H3K4me2 peaks (Methylome = METH, DMR = Differentially methylated region, EPIG = Chromatin profile, CS = Chromatin state) and their association (DIST = distance, CORR = correlation). B Description of the four regulatory modes associated with an increase of H3K4me2. Clusters of gene-peak associations are characterized in terms of the categorical variables used in the MFA (DMR, DEG), the chromatin state of the peaks (EPIG, CS). Representation of enriched functional Reactome categories from GSEA for each MFA cluster: the observed number of genes belonging to a given Gene Set and the expected number per cluster (with ratio >1.5). C Transcription factors (TFs) associated with the regulatory modes. Table lists the TFs with binding motifs enriched in H3K4me2 peaks from the selected MFA clusters. Source Data A–C were deposited into the Gene Expression Omnibus (GEO) repository of the National Center for Biotechnology Information under accession number GSE230142.

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