Skip to main content

Table 2 Randomization test of technical clustering software

From: Identifying technical aliases in SELDI mass spectra of complex mixtures of proteins

Threshold Original cluster Weight Cluster after randomizing Fx4_CM10_high_C066628 Weight
0.15 Fx4_CM10_high_C066628_ 0.581 Not clustered NA
  Fx4_CM10_high_C033359_ 0.419   
0.20 Fx4_CM10_high_C0133296 0.288 Not clustered NA
  Fx4_CM10_high_C066628_ 0.260   
  Fx4_CM10_high_C033359_ 0.176   
  Fx3_CM10_high_C033347_ 0.129   
  Fx4_CM10_high_C022248_ 0.061   
  Fx3_CM10_high_C066617_ 0.053   
  Fx3_CM10_high_C022244_ 0.033   
0.25 Fx4_CM10_high_C0133296 0.250 Not clustered NA
  Fx4_CM10_high_C066628_ 0.230   
  Fx4_CM10_high_C033359_ 0.154   
  Fx3_CM10_high_C033347_ 0.121   
  Fx3_CM10_high_C0133108 0.089   
  Fx4_CM10_high_C022248_ 0.055   
  Fx3_CM10_high_C066617_ 0.051   
  Fx3_CM10_high_C022244_ 0.027   
  Fx4_H50_high_C022244_ 0.024   
0.3 Fx4_CM10_high_C0133296 0.238 Fx3_CM10_high_C033347_ 0.237
  Fx4_CM10_high_C066628_ 0.224 Fx4_CM10_high_C033359_ 0.237
  Fx4_CM10_high_C033359_ 0.151 Fx3_CM10_high_C0133108 0.152
  Fx3_CM10_high_C033347_ 0.119 Fx4_CM10_high_C022248_ 0.106
  Fx3_CM10_high_C0133108 0.087 Fx3_CM10_high_C066617_ 0.093
  Fx4_CM10_high_C022248_ 0.054 Fx5_H50_high_C022236_ 0.065
  Fx3_CM10_high_C066617_ 0.050 Fx4_CM10_high_C066628_ 0.056
  Fx5_H50_high_C022236_ 0.030 Fx3_CM10_high_C022244_ 0.028
  Fx3_CM10_high_C022244_ 0.026 Fx4_H50_high_C022244_ 0.026
  Fx4_H50_high_C022244_ 0.020   
0.4 Fx4_CM10_high_C0133296 0.238 Fx4_CM10_high_C0133296 0.240
  Fx4_CM10_high_C066628_ 0.224 Fx4_CM10_high_C033359_ 0.165
  Fx4_CM10_high_C033359_ 0.151 Fx3_CM10_high_C033347_ 0.154
  Fx3_CM10_high_C033347_ 0.119 Fx3_CM10_high_C0197893 0.117
  Fx3_CM10_high_C0133108 0.087 Fx3_CM10_high_C0133108 0.112
  Fx4_CM10_high_C022248_ 0.054 Fx3_CM10_high_C066617_ 0.065
  Fx3_CM10_high_C066617_ 0.050 Fx4_CM10_high_C022248_ 0.064
  Fx5_H50_high_C022236_ 0.030 Fx5_H50_high_C022236_ 0.036
  Fx3_CM10_high_C022244_ 0.026 Fx3_CM10_high_C022244_ 0.024
  Fx4_H50_high_C022244_ 0.020 Fx4_H50_high_C022244_ 0.012
    Fx4_CM10_high_C066628_ 0.012
0.5 Fx4_CM10_high_C0133296 0.161 Fx4_CM10_high_C0133296 0.194
  Fx4_CM10_high_C066628_ 0.140 Fx4_CM10_high_C0196854 0.155
  Fx4_CM10_high_C0196854 0.129 Fx4_CM10_high_C033359_ 0.101
  Fx4_CM10_high_C033359_ 0.088 Fx3_CM10_high_C033347_ 0.074
  Fx3_CM10_high_C033347_ 0.064 Fx3_CM10_high_C0197893 0.065
  Fx6_CM10_high_C033435_ 0.060 Fx6_CM10_high_C033435_ 0.065
  Fx3_CM10_high_C0197893 0.055 Fx3_CM10_high_C0133108 0.061
  Fx3_CM10_high_C0133108 0.052 Fx6_CM10_high_C066702_ 0.042
  Fx6_CM10_high_C066702_ 0.036 Fx6_CM10_high_C0133574 0.039
  Fx6_CM10_high_C0133574 0.033 Fx3_H50_high_C033429_ 0.038
  Fx3_H50_high_C033429_ 0.032 Fx4_CM10_high_C022248_ 0.034
  Fx4_CM10_high_C022248_ 0.030 Fx3_CM10_high_C066617_ 0.033
  Fx3_CM10_high_C066617_ 0.028 Fx3_H50_high_C066672_ 0.023
  Fx3_H50_high_C066672_ 0.019 Fx5_H50_high_C022236_ 0.020
  Fx5_H50_high_C022236_ 0.018 Fx3_H50_high_C0133496 0.019
  Fx3_CM10_high_C022244_ 0.016 Fx3_CM10_high_C022244_ 0.018
  Fx3_H50_high_C0133496 0.016 Fx4_H50_high_C022244_ 0.017
  Fx4_H50_high_C022244_ 0.013 Fx4_CM10_high_C066628_ 0.002
  Fx5_CM10_high_C0133649 0.010   
  Fx5_CM10_high_C066776_ 0.001   
  1. The Technical Clustering software was applied to the dataset of spectra obtained from 85 samples before (left-hand column) and after (right hand column) randomizing the sample identities of the intensities of one peak (Fx4_CM10_high_C066628, in bold type). The clusters that contain the correct sample values are shown in the “Original Cluster” column at the indicated threshold CV, and after randomizing the sample intensities of just one peak on the right. The contributions (weights) of the components of the clusters are also shown.