Depletion of the Third Complement Component Ameliorates Age-Dependent Oxidative Stress and Positively Modulates Autophagic Activity in Aged Retinas in a Mouse Model

Table 2

Top gene sets enriched in 12-month-old C3-deficient and WT mice. Gene sets are ranked according to the normalized enrichment score (NES)—the gene set from the top of the list is the most enriched in C3-def mice and the gene set from the bottom of the list is the most enriched in WT mice.

Direction in C3-def	Gene set	Size	ES	NES	NOM value	FDR q value
Up	Secretory pathway	83	0.54	2.02	0.000	0.014
Up	Synaptic transmission	164	0.48	1.98	0.000	0.021
Up	Transmission of nerve impulse	179	0.47	1.96	0.000	0.021
Up	Neurological system process	359	0.42	1.90	0.000	0.038
Up	Nuclear export	32	0.60	1.84	0.000	0.076
Up	Golgi vesicle transport	48	0.54	1.81	0.000	0.097
Up	Brain development	47	0.53	1.80	0.000	0.090
Up	Secretion by cell	114	0.45	1.79	0.000	0.101
Up	Exocytosis	24	0.60	1.76	0.007	0.126
Up	Synaptogenesis	15	0.66	1.75	0.009	0.115
Up	RNA export from nucleus	19	0.63	1.73	0.003	0.131
Up	Regulation of cell-cell adhesion	9	0.77	1.72	0.007	0.135
Up	Microtubule-based movement	16	0.64	1.71	0.007	0.150
Up	Phototransduction	13	0.66	1.70	0.007	0.154
Up	Nervous system development	352	0.37	1.67	0.000	0.187
Up	Chromosome organization and biogenesis	118	0.42	1.67	0.000	0.184
Up	NLS-bearing substrate import into nucleus	12	0.67	1.67	0.017	0.175
Up	Synapse organization and biogenesis	20	0.60	1.66	0.022	0.174
Up	Establishment of cellular localization	343	0.36	1.63	0.000	0.216
Up	Central nervous system development	116	0.41	1.62	0.000	0.220
Up	Intracellular transport	272	0.37	1.62	0.001	0.196
Up	Cellular localization	360	0.36	1.62	0.000	0.194
Up	Sensory perception	181	0.38	1.61	0.001	0.206
Up	Vesicle-mediated transport	189	0.38	1.58	0.000	0.216
Up	Secretion	175	0.38	1.57	0.000	0.213
Up	Organelle organization and biogenesis	453	0.33	1.53	0.000	0.245
Down	Translation	163	−0.34	−1.51	0.003	0.241
Down	Response to external stimulus	297	−0.33	−1.58	0.000	0.216
Down	Immune system process	304	−0.34	−1.61	0.000	0.194
Down	Regulation of protein modification process	41	−0.47	−1.61	0.007	0.200
Down	Positive regulation of signal transduction	123	−0.38	−1.63	0.000	0.181
Down	Regulation of immune system process	64	−0.43	−1.68	0.003	0.158
Down	Response to wounding	182	−0.38	−1.68	0.000	0.158
Down	Response to biotic stimulus	107	−0.41	−1.69	0.000	0.155
Down	Regulation of protein amino acid phosphorylation	28	−0.54	−1.70	0.005	0.159
Down	Cytokine- and chemokine-mediated signaling pathway	22	−0.58	−1.73	0.009	0.127
Down	Developmental growth	11	−0.71	−1.75	0.007	0.113
Down	Regulation of protein import into nucleus	16	−0.64	−1.75	0.009	0.114
Down	Epithelial cell differentiation	9	−0.76	−1.76	0.010	0.115
Down	Immune response	214	−0.38	−1.76	0.000	0.120
Down	Inflammatory response	123	−0.42	−1.76	0.000	0.128
Down	Multiorganism process	134	−0.41	−1.76	0.000	0.134
Down	Regulation of immune response	32	−0.54	−1.76	0.005	0.143
Down	Regulation of phosphorylation	46	−0.51	−1.81	0.000	0.097
Down	Positive regulation of epithelial cell proliferation	10	−0.75	−1.84	0.000	0.077
Down	Morphogenesis of an epithelium	15	−0.71	−1.88	0.005	0.050
Down	Response to other organisms	72	−0.50	−1.94	0.000	0.023
Down	Tissue development	133	−0.47	−1.97	0.000	0.016
Down	Defense response	239	−0.43	−1.98	0.000	0.015
Down	Detection of biotic stimulus	10	−0.83	−2.04	0.000	0.010
Down	Acute inflammatory response	11	−0.85	−2.05	0.000	0.009
Down	Keratinocyte differentiation	14	−0.77	−2.08	0.000	0.005
Down	Response to bacterium	28	−0.67	−2.12	0.000	0.001
Down	Ectoderm development	76	−0.58	−2.23	0.000	0.001
Down	Epidermis development	67	−0.62	−2.37	0.000	0.000