Table 2 Spectronaut parameters
From: Single cell proteomic analysis defines discrete neutrophil functional states in human glioblastoma
Parameter | Value |
|---|---|
Precursor Qvalue cutoff | 0.01 |
Protein Qvalue cutoff (experiment) | 0.01 |
Protein Qvalue cutoff (run) | 0.01 |
Precursor PEP cutoff | 0.15 |
Protein PEP cutoff | 0.15 |
Protein LFQ method | Quant2.0 |
Quantity MS method (bulk) | MS2 |
Quantity MS method (mini-bulk & single cell) | MS1 |
Cross-run normalisation | Off |
Major (protein) grouping | Protein Group ID |
Major group quantity | Peptide sum |
Major group top N | Off |
Minor (peptide) grouping | By Stripped Sequence |
Minor group quantity | Median precursor quantity |
Minor group top N | Off |
Enzymes/cleave rules | Trypsin/P |
Missed cleavages | 2 |
