Table 3.

Biological processes found to be altered in both transcriptome and proteome datasets

Gene ontology	Transcriptome					Proteome
	Total genes	Diff. genes	P-value	FDR (%)	Enr.	Total genes	Diff. genes	P-value	FDR (%)	Enr.
GO:0003008—System_process	840	40	< 0.001	< 0.01	–	27	9	0.01	0.37	2.1
GO:0007267—Cell-cell_signaling	612	38	< 0.001	< 0.01	–	23	8	0.01	0.40	2.2
GO:0007268—Synaptic_transmission	297	31	< 0.001	< 0.01	–	18	7	0.01	0.58	2.4
GO:0019226—Transmission_of_nerve_impulse	326	33	< 0.001	< 0.01	–	20	7	0.02	0.43	2.2
GO:0023046—Signaling_process	1975	63	< 0.001	< 0.01	–	41	13	0.002	0.25	2
GO:0023060—Signal_transmission	1973	63	< 0.001	< 0.01	–	41	13	0.002	0.25	2
GO:0050877—Neurological_system_process	541	35	< 0.001	< 0.01	–	21	7	0.03	0.39	2.1
GO:0007154—Cell_communication	1174	41	0.001	< 0.01	–	32	9	0.04	0.36	1.8
GO:0007269—Neurotransmitter_secretion	50	8	0.002	< 0.01	–	5	3	0.03	0.45	3.8
GO:0023052—Signaling	2871	71	0.003	< 0.01	–	53	13	0.03	0.46	1.5
GO:0044057—Regulation_of_system_process	135	8	0.05	0.04	–	5	3	0.03	0.45	3.8
GO:0065008—Regulation_of_biological_quality	1443	21	0.05	0.02	2	49	12	0.05	0.35	1.5

P-value corrected for multiple comparisons

Diff. genes differentially expressed genes, Enr. enrichment; FDR False Discovery Rate calculated with one-sided Fisher exact