Table 3. Within-experiment enrichment analysis.
| Data | CONSOL | REC | EXTNOR | |||
|---|---|---|---|---|---|---|
| Expression set | C200mso | C200aso | R200mso | R200aso | E200ext | E200nor |
| Memory state | Consolidation | Impaired consolidation | “Reconsolidation” | Impaired “reconsolidation” | Extinction | No extinction |
| CA1 expression | More highly expressed | More highly expressed | More highly expressed | More highly expressed | More highly expressed | More highly expressed |
| Combined genes1 | 64 | 9 | 93 | 0 | 120 | 0 |
| Ontology clusters2 | Organismal development (5T, 51G), | Synaptic transmission (4T, 9G) | Response to bacterium (6T, 17G) | NS | Organismal development (6T, 66G) | NS |
| Carboxylic acid metabolism (4T, 16G) | Response to stress (4T, 14G) | Regulation of developmental process (3T, 32G) | ||||
| Inflammatory response (3T, 35G) | Positive regulation of cell development (4T, 20G) | |||||
| Positive immune system regulation (5T, 20G) | Regulation of cell motion (4T, 10G) | |||||
| Immune system development (3T, 13G) | Vasculature development (3T, 15G) | |||||
| Immune-cell motion (13T, 27G) | Tube morphogenesis (11T, 17G) | |||||
| Positive regulation of metabolic process (3T, 36G) | Cell adhesion (3T, 14G) | |||||
| Signal transducer activity (3T, 31G) | Hormone response (5T, 36G) | |||||
| Peptidase inhibitor activity (3T, 9G) | Nutrient response (3T, 14G) | |||||
| Cytokine activity (3T, 10G) | Plasma membrane (5T, 77G) | |||||
| Signal transducer activity (5T, 41G) | ||||||
| Tyrosine protein kinase receptor (5T, 13G) | ||||||
Clusters of enriched ontology terms in the 200 probes for six expression sets (C200mso, C200aso, R200mso, R200aso E200ext and E200nor), representing the top 200 up-regulated and down-regulated expressed genes in the Affymetrix datasets associated with consolidation (CONSOL; up-regulated, C200mso and down-regulated, C200aso), recall (REC; up-regulated, R200mso and down-regulated, R200aso) and extinction (EXTNOR; (up-regulated, E200ext and down-regulated, E200nor).
1 Combined number of genes with unique identities.
2 Enrichment analysis using the array as reference (EASE < 0.01, kappa threshold = 0.7). Cluster classifications are followed by number of ontology terms in cluster and number of unique genes (T, G). NS is non-significant for cut-offs.