Table 3.

Selected (firsts 50) gene ontology (GO) biological pathways potentially affected by (a) miRNAs down-regulated; and (b) miRNAs up-regulated in the presence of vitamin C in human bone marrow stromal cells.

(a)
GO Category	p-Value	Genes	miRNAs
organelle	1.15 × 10−87	2073	24
ion binding	7.43 × 10−46	1270	25
cellular nitrogen compound metabolic process	7.82 × 10−45	1006	24
biosynthetic process	1.56 × 10−32	856	24
small molecule metabolic process	1.56 × 10−17	489	24
cellular protein modification process	3.92 × 10−15	475	24
neurotrophin TRK receptor signaling pathway	2.05 × 10−14	70	18
synaptic transmission	2.05 × 10−14	121	21
nucleic acid binding transcription factor activity	1.32 × 10−13	231	24
cellular protein metabolic process	2.55 × 10−11	106	20
cell-cell signaling	1.27 × 10−10	162	24
catabolic process	1.50 × 10−10	390	24
cellular component assembly	2.41 × 10−9	272	23
molecular_function	2.43 × 10−9	3342	25
gene expression	2.95 × 10−9	116	22
symbiosis, encompassing mutualism through parasitism	4.66 × 10−9	111	21
post-translational protein modification	4.93 × 10−9	46	17
cellular_component	5.00 × 10−9	3383	25
blood coagulation	1.28 × 10−8	101	20
viral process	2.94 × 10−8	97	21
protein binding transcription factor activity	7.72 × 10−8	110	22
macromolecular complex assembly	1.45 × 10−7	185	23
enzyme binding	1.74 × 10−7	261	23
Fc-epsilon receptor signaling pathway	5.08 × 10−7	38	15
response to stress	1.46 × 10−6	437	25
toll-like receptor TLR1:TLR2 signaling pathway	2.79 × 10−6	21	10
toll-like receptor TLR6:TLR2 signaling pathway	2.79 × 10−6	21	10
toll-like receptor 10 signaling pathway	3.62 × 10−6	20	10
membrane organization	5.32 × 10−6	121	23
energy reserve metabolic process	8.12 × 10−6	30	13
TRIF-dependent toll-like receptor signaling pathway	1.46 × 10−5	21	10
protein complex assembly	1.95 × 10−5	158	23
MyD88-independent toll-like receptor signaling pathway	2.89 × 10−5	22	11
protein complex	3.71 × 10−5	708	24
toll-like receptor 5 signaling pathway	3.75 × 10−5	20	10
toll-like receptor 9 signaling pathway	4.84 × 10−5	21	10
Golgi lumen	5.79 × 10−5	26	11
O-glycan processing	7.15 × 10−5	18	12
immune system process	0.000127	309	25
mitotic cell cycle	0.00013	74	19
cytoskeletal protein binding	0.000137	155	22
generation of precursor metabolites and energy	0.000171	74	18
regulation of rhodopsin mediated signaling pathway	0.000201	12	10
toll-like receptor 4 signaling pathway	0.000201	26	11
inositol phosphate metabolic process	0.000219	17	9
nucleobase-containing compound catabolic process	0.000385	168	24
toll-like receptor 2 signaling pathway	0.000449	21	10
platelet degranulation	0.000563	20	15
glycosaminoglycan metabolic process	0.000573	26	13
platelet activation	0.000643	44	18
(b)
GO Category	p-Value	Genes	miRNAs
organelle	1.67 × 10−95	2091	47
ion binding	3.27 × 10−55	1303	47
cellular nitrogen compound metabolic process	7.65 × 10−47	1010	46
biosynthetic process	1.19 × 10−35	866	46
gene expression	7.04 × 10−23	151	38
cellular protein modification process	1.18 × 10−22	507	46
small molecule metabolic process	7.20 × 10−18	488	45
nucleic acid binding transcription factor activity	1.08 × 10−12	227	43
molecular_function	2.35 × 10−11	3343	48
cellular_component	8.85 × 10−10	3375	48
cellular protein metabolic process	1.27 × 10−9	101	35
enzyme binding	1.33 × 10−9	272	43
protein binding transcription factor activity	5.19 × 10−9	114	37
cellular component assembly	9.08 × 10−9	268	42
viral process	1.39 × 10−8	98	31
blood coagulation	2.54 × 10−8	100	35
symbiosis, encompassing mutualism through parasitism	6.42 × 10−8	107	32
neurotrophin TRK receptor signaling pathway	9.66 × 10−8	56	28
catabolic process	9.95 × 10−8	371	44
cell death	3.44 × 10−7	195	40
protein complex	5.91 × 10−7	724	46
enzyme regulator activity	7.70 × 10−7	179	36
platelet activation	9.11 × 10−7	52	25
membrane organization	2.77 × 10−6	122	36
post-translational protein modification	3.62 × 10−6	40	23
Fc-gamma receptor signaling pathway involved in phagocytosis	4.22 × 10−6	22	13
cytoskeletal protein binding	1.60 × 10−5	160	37
nucleoplasm	1.79 × 10−5	233	43
cytosol	2.00 × 10−5	523	43
cell junction organization	2.35 × 10−5	42	24
nucleobase-containing compound catabolic process	3.39 × 10−5	174	41
transmembrane transporter activity	3.63 × 10−5	219	38
macromolecular complex assembly	3.63 × 10−5	172	39
toll-like receptor TLR1:TLR2 signaling pathway	5.04 × 10−5	19	15
toll-like receptor TLR6:TLR2 signaling pathway	5.04 × 10−5	19	15
TRIF-dependent toll-like receptor signaling pathway	5.32 × 10−5	20	16
toll-like receptor 10 signaling pathway	6.86 × 10−5	18	15
Fc-epsilon receptor signaling pathway	8.73 × 10−5	33	19
cellular component disassembly involved in execution phase of apoptosis	0.000104	15	11
vitamin metabolic process	0.000237	21	19
MyD88-independent toll-like receptor signaling pathway	0.000351	20	16
homeostatic process	0.000351	168	41
mitotic cell cycle	0.000368	72	34
protein complex assembly	0.000392	150	37
water-soluble vitamin metabolic process	0.000403	19	17
toll-like receptor 5 signaling pathway	0.000491	18	15
energy reserve metabolic process	0.000538	26	18
glycerophospholipid biosynthetic process	0.000692	23	14
activation of signaling protein activity involved in unfolded protein response	0.000692	18	16
transcription initiation from RNA polymerase II promoter	0.000793	52	25
toll-like receptor 9 signaling pathway	0.001896	18	15