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Table 16 Relative ranking of affinity scoring schemes for complex detection

From: MCL-CAw: a refinement of MCL for detecting yeast complexes from weighted PPI networks by incorporating core-attachment structure

PPI network   Wodak MIPS Aloy   
  Method F1 Norm F1 Norm F1 Norm Total Norm
MCL Cons3.19 0.573 1.000 0.407 1.000 0.567 0.970 2.970 1.000
  FSW(G+K) 0.541 0.944 0.393 0.965 0.585 1.000 2.909 0.980
  ICD(G+K) 0.498 0.871 0.370 0.908 0.543 0.928 2.706 0.911
  Boot0.094 0.426 0.744 0.299 0.733 0.400 0.684 2.161 0.728
MCLO Cons3.19 0.606 1.000 0.471 1.000 0.575 0.939 2.939 1.000
  ICD(G+K) 0.533 0.879 0.412 0.875 0.572 0.934 2.688 0.914
  FSW(G+K) 0.513 0.847 0.376 0.798 0.612 1.000 2.645 0.900
  Boot0.094 0.424 0.700 0.267 0.567 0.392 0.641 1.908 0.649
MCL-CAw Cons3.19 0.614 1.000 0.487 1.000 0.576 0.921 2.921 1.000
  FSW(G+K) 0.576 0.938 0.423 0.868 0.625 1.000 2.806 0.961
  ICD(G+K) 0.567 0.923 0.450 0.923 0.578 0.925 2.771 0.949
  Boot0.094 0.447 0.728 0.282 0.579 0.416 0.666 1.973 0.675
CMC Cons3.19 0.604 1.000 0.479 1.000 0.588 1.000 3.000 1.000
  Boot0.094 0.577 0.955 0.366 0.764 0.515 0.877 2.597 0.866
  ICD(G+K) 0.531 0.880 0.403 0.843 0.480 0.816 2.538 0.846
  FSW(G+K) 0.484 0.801 0.338 0.705 0.465 0.791 2.297 0.766
HACO FSW(G+K) 0.581 1.000 0.396 1.000 0.609 1.000 3.000 1.000
  Boot0.094 0.572 0.984 0.380 0.961 0.585 0.961 2.906 0.969
  ICD(G+K) 0.565 0.972 0.378 0.956 0.593 0.973 2.902 0.967
  Cons3.19 0.495 0.852 0.379 0.957 0.502 0.824 2.634 0.878
  1. Ranking obtained from normalized F1 values.
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BMC Bioinformatics

ISSN: 1471-2105

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