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Table 1 Experimental conditions and statistics on database searches of four individual experiments using a single urine sample

From: The human urinary proteome contains more than 1500 proteins, including a large proportion of membrane proteins

  In-gel 1 In-gel 2 In-solution 1 In-solution 2
Urinary protein 150 μg 150 μg 125 μg 125 μg
Albumin removal - - + +
Protein separation Invitrogen NuPAGE 4-12% Bis-Tris 1D gel Agilent mRP-C18 column
Number of fraction 14 10 22 22
Digestion In-gel In-gel In-solution In-solution
Denaturant    50% Trifluoroethanol 6 mol/l Urea + 2 mol/l thiourea
LC gradient time 100 min 140 min 100 min 100 min
Identified IT-MS2 spectra by Mascota 16,219 10,535 13,367 10,175
Number of unique peptidesa 4504 3853 3164 2637
Number of identified proteinsa 759 815 656 580
Total number of unique peptidesa 8041
Total number of identified proteinsa 1281
  1. aApplied criteria are described in the Materials and methods section. 1D, one-dimensional; LC, liquid chromatography; MS, mass spectrometry.