Raw file	Experiment	Enzyme	Enzyme mode	Enzyme first search	Enzyme mode first search	Use enzyme first search	Variable modifications	Variable modifications first search	Use variable modifications first search	Multiplicity	Max. missed cleavages	Labels0	LC-MS run type	Time-dependent recalibration	MS	MS/MS	MS/MS Submitted	MS/MS Submitted (SIL)	MS/MS Submitted (ISO)	MS/MS Submitted (PEAK)	MS/MS Identified	MS/MS Identified (SIL)	MS/MS Identified (ISO)	MS/MS Identified (PEAK)	MS/MS Identified [%]	MS/MS Identified (SIL) [%]	MS/MS Identified (ISO) [%]	MS/MS Identified (PEAK) [%]	Peptide Sequences Identified	Peaks	Peaks Sequenced	Peaks Sequenced [%]	Peaks Repeatedly Sequenced	Peaks Repeatedly Sequenced [%]	Isotope Patterns	Isotope Patterns Sequenced	Isotope Patterns Sequenced (z>1)	Isotope Patterns Sequenced [%]	Isotope Patterns Sequenced (z>1) [%]	Isotope Patterns Repeatedly Sequenced	Isotope Patterns Repeatedly Sequenced [%]	Recalibrated	Av. Absolute Mass Deviation [ppm]	Mass Standard Deviation [ppm]	Av. Absolute Mass Deviation [mDa]	Mass Standard Deviation [mDa]	Label free norm param
YJC_A_20141124_01	1	Trypsin/P	Specific			False	Acetyl (Protein N-term);Oxidation (M)		False	1	2		Standard		11626	28366	44320	12412	0	31908	866	823	0	43	1.95	6.63	NaN	0.13	779	1108167	20826	1.88	1774	8.52	48639	9705	8927	19.95	29.29	2205	22.72	+	0.40927	0.56267	0.29766	0.43868	
YJC_B_20141124_01	2	Trypsin/P	Specific			False	Acetyl (Protein N-term);Oxidation (M)		False	1	2		Standard		11784	23595	37790	9400	0	28390	458	431	0	27	1.21	4.59	NaN	0.1	390	1027347	17064	1.66	1418	8.31	39033	7392	6686	18.94	30.13	1657	22.42	+	0.3288	0.47614	0.24478	0.41254	
YJC_C_20141124_01	3	Trypsin/P	Specific			False	Acetyl (Protein N-term);Oxidation (M)		False	1	2		Standard		11686	22226	35412	9040	0	26372	285	266	0	19	0.8	2.94	NaN	0.07	205	991145	16103	1.62	1390	8.63	37971	6893	6213	18.15	31.78	1732	25.13	+	0.48205	0.6408	0.32945	0.4603	
YJC_D_20141124_01	4	Trypsin/P	Specific			False	Acetyl (Protein N-term);Oxidation (M)		False	1	2		Standard		11702	28256	45260	11252	0	34008	394	367	0	27	0.87	3.26	NaN	0.08	300	1445184	20909	1.45	1597	7.64	59253	8710	7772	14.7	26.82	2045	23.48	+	0.39314	0.57379	0.27893	0.48312	
1																													779																		
2																													390																		
3																													205																		
4																													300																		
Total															46798	102443	162782	42104	0	120678	2003	1887	0	116	1.23	4.48	NaN	0.1	1192	4571843					184896	32700	29598	17.69	29.25	7639	23.36		0.39759	0.55801	0.28619	0.44513