Parameter	Value
Version	1.0.13.8
Released	True
Peptide FDR	0.05
Max. peptide PEP	1
Protein FDR	0.01
Site FDR	0.01
Apply site FDR separately	True
Min. peptide Length	6
Min. unique peptides	1
Min. peptides	1
Reverse string	REV_
Contaminant string	CON_
Use only unmodified peptides and	True
Modifications included in protein quantitation	Oxidation (M);Acetyl (Protein N-term);Phospho (ST);Phospho (Y)
Peptides used for protein quantitation	Razor
Min. ratio count	1
Number of threads	4
Re-quantify	True
Keep low-scoring versions of identified peptides	True
Fasta file	D:\SILAC\Database\ipi.MOUSE.v3.52.decoy.fasta
Experimental design file	D:\SILAC\Projects\AM_LRRK2_IP\combined\ohne exp1.txt
Site tables	Oxidation (M)Sites.txt;Phospho (ST)Sites.txt;Phospho (Y)Sites.txt
Variable modifications	Oxidation (M);Acetyl (Protein N-term);Phospho (ST);Phospho (Y)
Fixed modifications	Carbamidomethyl (C)
Database	MQ_IPI_mouse
Username	karsten.boldt
Max. msm file size [MB]	350
SILAC type	doublets
MS/MS tol. (CID)	0.5 Da
Top MS/MS peaks per 100 Da. (CID)	6
