TABLE 3.

Alphabetical list of proteins, which may have differential abundance in the Apoe^−/− (KO) versus WT retina

Protein (total number. of detected peptides)	Peptides with Significant Changes in Abundance	Peptide Intensity (a.u.) × 106		Peptide Intensity Ratio, KO/WT	Number of Peptides with Nonsignificant Changes in Abundance, KO/WT
		Apoe-/-, Mean ± SD	WT, Mean ± SD
Proteins with decreased abundance in the Apoe−/− versus WT retina
CRYBB1 (8)	VGSITVSGGTWVGYQYPGYR	0.8 ± 0.5	6.7 ± 3.3	0.12	7 (↓)
CRYBB2 (9)	GEYPRWDSWTSSR	0.7 ± 0.7	22.4 ± 18.2	0.03	8 (↓)
FGB (4)	YCGLPGEYWLGNDK	3.3 ± 1.5	5.0 ± 4.2	0.66	2 (↓)
GSN (11)	SEDCFILDHGR	2.2 ± 3.8	9.5 ± 3.3	0.24	10 (↓)
HIST1H4K (14)	VFLENVIRDAVTYTEHAK	67.5 ± 114.8	1,378.0 ± 399.4	0.05	10 (↓)
REEP5 (4)	HESQVDSVVK	3.0 ± 2.3	5.1 ± 4.4	0.59	3 (↓)
Proteins with Increased Abundance in the Apoe−/− versus WT Retina
SCG2 (5)	PNGLVEPEQDLELAVDLDDIPEADLDRPDMFQSK	3.0 ± 0.7	2.0 ± 0.8	1.5	3 (↑)
ZC3H4 (7)	LDSFSQVGPGSETVTQK	3.2 ± 1.2	1.6 ± 0.3	1.90	6 (↑)

One peptide in each of these proteins had a significantly different abundance (P ≤ 0.05) between the genotypes, and two or more of the remaining peptides showed the same direction of change in abundance (nonsignificant); in the latter, the KO/WT peptide intensity ratio was ≤0.7 (↓) or ≥1.3 (↑). a.u., arbitrary units.