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Table 1 Number of clusters of given cluster size N. The columns 2 and 3 describe the cluster size in the PMF- and the MS/MS datasets. Number of spectra – number of peak-lists submitted for database search, identified spectra – spectra assigned to a database ID with an either significant probability based Mowse score (PMF-data) or to a peptide sequence with Xcorr > 2, and an ion coverage > 20% (MS/MS-data) given a parent peptide charge z = 2. Identified proteins/peptides – the number of uniquely identified proteins or peptides. A– approximate number of spectra derived from ion fragments of peptides with charge z = 2. B– The number of spectra with charge z = 2 of the parent ion (≈ 53% of all identified spectra).

From: Transformation and other factors of the peptide mass spectrometry pairwise peak-list comparison process

 

Dataset

 

PMF

MS/MS

number of spectra

4532

≈ 200000A

number of identified spectra

2336

26507B

N = 1

176

5718

N ∈ (1,5]

392

1965

N ∈ (5, 10]

66

388

N ∈ (10, 25]

31

354

N ∈ (25, 50]

2

111

N > 50

1

43

Identified: proteins (PMF)|peptides (MS/MS)

668

8579