Table 2.

Summary of data analysis and quantification of 1D-nano LC ESI-MSMS for each pairwise comparison (oviductal fluid/uterine fluid (OF/UF), plasma/oviductal fluid (P/OF), and P/UF), indicating the number of abundance proteins for each of the contrasts with different degrees of confidence. The protein abundance for each paired comparison were color-coded according to the statistical confidence (green or red for high grade, yellow or orange for medium grade, yellow or light orange for low degree of confidence and white for no significantly different expression).

OF/UF	OF/P	UF/P	Abundance Color-Code According to the Statistical Confidence
77.90%	60.40%	77.90%	truly null fraction (π0, proportion of contrasts under the null hypothesis)
15	49	13	Confident high abundant (q-value < 0.01, positive log fold change)
25	107	52	Likely high abundant (q-value < 0.05, positive log fold change)
308	601	398	Putative high abundant (q-value > 0.05 but p-value < 1−π0, positive log fold change)
1016	552	958	no differentially abundant
232	216	127	Putative low abundant (q-value > 0.05 but p-value < 1−π0, negative log fold change)
16	33	27	Likely low abundant (q-value < 0.05, negative log fold change)
14	67	27	Confident low abundant (q-value < 0.01, negative log fold change)
1626	1625	1602	# hypotheses tested
70	256	119	# hypotheses significant with q < 0.05