Fig. 3

Hippocampal DEG interactome enriched with candidate genes involved in ASD, epilepsy and learning/memory. a The protein interaction network for DEGs (143 nodes and 145 edges). To extract the DEG subnetwork, a hippocampal interactome network was constructed by integrating the 15,254 hippocampally expressed genes and a protein interaction data from BIOGRID, and then the 1,247 DEGs were mapped to the hippocampal interactome to extract a subnetwork including DEGs and their first co-expressed neighbors. Red node: upregulated; blue node: downregulated; gray node: without expression change; node with green border: co-expressed neighbor; gray line: protein-protein interaction (PPI); double lines: PPI and co-expression. b Enrichment of ASD candidate genes in DEG subnetwork compared to all DEGs. Fraction of ASD candidate genes = 0.0574 (876/15,254) in mouse expressed genes; 0.0874 (109/1247) in differentially expressed genes; 0.2028 (29/143) in DEGs in the mouse hippocampal interactome. p = 7.8167E-06 between expressed genes and DEGs; p = 4.1585E-06 between expressed genes and DEGs in the mouse hippocampal interactome; p = 2.0957E-09 between all DEGs and DEGs in the mouse hippocampal interactome. Error bars represent the standard error of the fraction, estimated using a bootstrapping method with 100 resamplings. **p < 0.01; ***p < 0.001 two-tailed fisher-exact test. c Enrichment of epilepsy candidate genes enriched in DEG subnetwork compared to all DEGs. Fraction of epilepsy candidate genes = 0.0325 (496/15,254) in expressed genes; 0.0609 (76/1247) in DEGs; 0.1608 (23/143) in DEGs in the mouse hippocampal interactome. p = 1.001E-07 between expressed genes and DEGs; p = 2.156E-10 between expressed genes and DEGs in the mouse hippocampal interactome; p = 3.7105E-06 between in all DEGs and DEGs in the mouse hippocampal interactome; Error bars represent the standard error of the fraction, estimated using a bootstrapping method with 100 resamplings. **p < 0.01, ***p < 0.001, two-tailed fisher-exact test. d Enrichment of LM-related genes in DEG subnetwork compared to all DEGs. Fraction of LM-related genes = 0.0384 (585/15,254) in expressed genes; 0.0626 (78/1247) in DEGs; 0.1958 (28/143) in DEGs in the hippocampal interactome. p = 1.443E-5 between expressed genes and DEGs; p = 8.1167E-13 between expressed genes and DEGs in the hippocampal interactome; p = 3.5114E-09 between all DEGs and DEGs in the hippocampal interactome. Error bars represent the standard error of the fraction, estimated using a bootstrapping method with 100 resamplings. **p < 0.01, ***p < 0.001, two-tailed fisher-exact test. e The top 10 KEGG pathways enriched with genes in the DEG subnetwork.