The predictive nature of transcript expression levels on protein expression in adult human brain

Bauernfeind, Amy L.; Babbitt, Courtney C.

doi:10.1186/s12864-017-3674-x

BMC Genomics

Table 1 GO categories with the highest predictive value between transcript/protein pairs

From: The predictive nature of transcript expression levels on protein expression in adult human brain

Category	n	R²	p	Slope	Slope CI	Intercept	Intercept CI
Biological process
regulation of protein modification process	10	0.51	0.0211	0.38	0.07 – 0.68	4.06	3.37 – 4.75
positive regulation of cell communication	11	0.50	0.0145	0.47	0.12 – 0.82	3.86	3.05 – 4.68
membrane lipid metabolic process	11	0.47	0.0192	0.75	0.15 – 1.35	2.99	1.52 – 4.46
regulation of phosphate metabolic process	10	0.47	0.0290	0.38	0.05 – 0.7	4.08	3.34 – 4.82
regulation of synaptic plasticity	10	0.46	0.0317	0.73	0.08 – 1.38	3.58	1.88 – 5.29
regulation of kinase activity	15	0.44	0.0070	0.76	0.25 – 1.27	3.16	1.85 – 4.46
protein amino acid phosphorylation	34	0.43	0.0000	0.56	0.33 – 0.79	3.8	3.27 – 4.33
phosphate metabolic process	55	0.40	0.0000	0.57	0.38 – 0.76	3.75	3.31 – 4.19
cellular protein complex assembly	16	0.40	0.0089	0.67	0.2 – 1.15	4.02	2.87 – 5.17
phosphorylation	41	0.38	0.0000	0.56	0.33 – 0.79	3.82	3.3 – 4.35
endocytosis	19	0.37	0.0055	0.57	0.19 – 0.95	4.07	3.2 – 4.93
calcium ion transport	11	0.37	0.0483	0.65	0.01 – 1.3	3.72	2.04 – 5.39
DNA metabolic process	11	0.35	0.0548	0.6	-0.02 – 1.21	3.77	2.48 – 5.05
negative regulation of protein metabolic process	19	0.35	0.0081	0.45	0.13 – 0.76	4.08	3.23 – 4.92
cell cycle	14	0.35	0.0272	0.5	0.07 – 0.93	3.7	2.77 – 4.62
positive regulation of cell proliferation	20	0.34	0.0068	0.41	0.13 – 0.69	4.02	3.50 – 4.54
regulation of hydrolase activity	18	0.34	0.0110	0.53	0.14 – 0.92	3.91	2.98 – 4.84
regulation of actin filament length	12	0.34	0.0477	0.48	0.01 – 0.96	4.18	2.87 – 5.49
cell projection organization	14	0.33	0.0306	0.67	0.07 – 1.26	3.64	2.00 – 5.28
regulation of growth	12	0.33	0.0499	0.51	0 – 1.02	3.93	2.67 – 5.18
regulation of cell growth	10	0.33	0.0824	0.48	-0.08 – 1.04	3.89	2.55 – 5.24
positive regulation of cellular process	64	0.31	0.0000	0.44	0.27 – 0.61	4.16	3.77 – 4.54
protein modification process	65	0.30	0.0000	0.46	0.28 – 0.64	3.96	3.55 – 4.38
Molecular function
phosphatase activity	16	0.47	0.0036	0.97	0.37 – 1.56	2.67	1.24 – 4.11
phosphoprotein phosphatase activity	12	0.41	0.0241	0.72	0.11 – 1.32	3.29	1.83 – 4.74
protein kinase activity	33	0.37	0.0002	0.55	0.28 – 0.81	3.76	3.2 – 4.33
protein domain specific binding	18	0.37	0.0079	0.55	0.16 – 0.93	3.74	2.82 – 4.65
phosphotransferase activity alcohol group as acceptor	45	0.35	0.0000	0.56	0.33 – 0.79	3.8	3.31 – 4.3
manganese ion binding	12	0.34	0.0451	-0.39	-0.76 – - 0.01	5.25	4.52 – 5.98
ATPase activity coupled to transmembrane movement of ions phosphorylative mechanism	17	0.34	0.0135	0.39	0.09 – 0.69	4.74	4.04 – 5.44
GTPase activity	52	0.33	0.0000	0.48	0.29 – 0.68	4.28	3.8 – 4.75
calmodulin binding	31	0.33	0.0008	0.52	0.24 – 0.81	4.11	3.4 – 4.83
ligase activity	20	0.31	0.0102	0.42	0.11 – 0.72	3.85	3.11 – 4.58
Cellular component
outer membrane	10	0.66	0.0043	0.88	0.37 – 1.40	3.4	2.30 – 4.51
membrane coat	13	0.46	0.0107	0.76	0.21 – 1.30	3.58	2.25 – 4.90
extracellular matrix	11	0.38	0.0435	0.67	0.02 – 1.32	3.71	2.16 – 5.25
organelle lumen	10	0.37	0.0612	-0.38	-0.79 – 0.02	5.93	4.98 – 6.89
mitochondrial membrane part	21	0.36	0.0043	0.84	0.30 – 1.39	3.23	1.94 – 4.52
cell surface	12	0.30	0.0630	0.35	-0.02 – 0.72	4.35	3.43 – 5.27
membrane-enclosed lumen	12	0.30	0.0638	-0.37	-0.77 – 0.03	6.01	5.07 – 6.94

Data in bold are the subcategories

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ISSN: 1471-2164

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