A SELDI mass spectrometry study of experimental autoimmune encephalomyelitis: sample preparation, reproducibility, and differential protein expression patterns

Table 3 Differentially expressed protein peaks in EAE as compared to control brain tissue

Fraction (Q)	Mass (m/z)	Acquisition settings	p-Value	ROC Area	Expression change in EAE
1	108995	HMW	0.03	0.00	↓
2	6540	HMW	0.05	0.13	↓
2	10274	HMW	0.05	0.07	↓
2	11691	HMW	0.05	1.00	↑
2	13365	HMW	0.05	0.07	↓
2	14349	HMW	0.05	1.00	↑
2	16836	HMW	0.05	0.00	↓
2	31521	HMW	0.05	0.07	↓
2	13331	LMW	0.03	0.00	↓
2	49085	LMW	0.05	0.06	↓
3	8044	HMW	0.02	0.00	↓
3	10416	HMW	0.03	0.07	↓
3	10862	HMW	0.02	0.00	↑
3	12448	HMW	0.05	0.96	↑
3	13954	HMW	0.05	0.03	↓
3	8251	LMW	0.05	0.00	↓
3	10855	LMW	0.03	0.00	↓
3	12493	LMW	0.05	0.95	↑
3	15498	LMW	0.03	0.00	↓
4	9841	HMW	0.03	1.00	↑
4	42924	HMW	0.05	0.93	↑
4	6583	LMW	0.05	0.07	↓
4	9115	LMW	0.05	0.07	↓
5	8528	HMW	0.02	0.00	↓
5	16910	HMW	0.02	0.00	↓
5	17307	HMW	0.02	0.00	↓
5	8392	LMW	0.03	0.00	↓
5	9801	LMW	0.05	0.93	↑
5	16878	LMW	0.03	0.00	↓
5	17280	LMW	0.05	0.00	↓
6	9717	HMW	0.03	0.00	↓
6	13854	HMW	0.03	1.00	↑
6	3006	LMW	0.03	0.00	↓
6	3266	LMW	0.03	0.00	↓
6	4272	LMW	0.03	0.00	↓
6	5455	LMW	0.03	0.00	↓
6	10637	LMW	0.05	0.07	↓
6	13809	LMW	0.03	1.00	↑
6	23228	LMW	0.05	0.93	↑

Fraction Q: number of the ion exchange fractionation; m/z: mass/charge ratio of the protein peak; LMW: low molecular weight protocol; HMW: high molecular weight protocol; ↑: protein level was increased in EAE as compared to control; ↓: protein level was decreased in EAE as compared to control.

ISSN: 1477-5956