Figure 3

Memory acquisition and retrieval down-regulate different processes. A. Comparison of differential expression between memory acquisition (x-axis) and retrieval (y-axis). Values represent t-statistics of each condition (FC30', RT30') vs. circadian time control (CC30') for each gene. Genes not differentially expressed are represented as black circles, differentially expressed (DE) genes at FDR <0.1 are represented as red circles for FC30 and blue crosses for RT30'. Results of functional annotation clustering analysis (Figures S4 and S5) for each class of DE genes are shown in colored ovals and labeled according to enriched function. Genes upregulated at FC30' and RT30' corresponding to the function "Regulation of transcription" are highlighted in orange. Genes downregulated at FC30 corresponding to the function "Chromatin assembly" are shown in green. Genes downregulated at RT30' corresponding to the function "RNA processing" are shown in pink. Enrichment scores (EASE) for functional clusters are shown in parenthesis, all functions are significantly enriched compared to the expected frequency for genes in the microarray (EASE >1.3 ~ geometric mean of p-value of all functions in the cluster <0.05) B. Downregulation of gene expression of H2AB at the first sensitive period during consolidation (FC30', dark grey) C. Downregulation of gene expression of Rbfox1 after retrieval of memory (RT30', light gray). Microarray and qPCR samples belong to independent cohorts of animals (n = 9, n = 8). Values represent average fold change relative to controls (CC30') after normalization against Gapdh levels. Microarray experiment results are labeled: (M). Statistical significance is shown as either fdr (microarrays) or p-values (qPCR) <0.05 (**) or <0.1 (*).