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Table 3 Rank correlations for probability of differential expression between all possible combinations of normalization and statistical analysis procedures

From: Profound effect of normalization on detection of differentially expressed genes in oligonucleotide microarray data analysis

  Invariant feature; AD, F Invariant feature; AD, KW Invariant feature; AD, SAM Invariant feature; MBEV, F Invariant feature; MBEV, KW Invariant feature; MBEV, SAM Invariant set; F Invariant set; KW Invariant set; SAM Global scaling; F Global scaling; KW Global scaling; SAM
Invariant feature; AD, F 1.000 0.922 0.995 0.512 0.495 0.512 0.545 0.549 0.546 0.626 0.618 0.623
Invariant feature; AD, KW 0.922 1.000 0.915 0.487 0.487 0.487 0.540 0.555 0.541 0.604 0.621 0.600
Invariant feature; AD, SAM 0.995 0.915 1.000 0.517 0.500 0.517 0.553 0.555 0.553 0.625 0.617 0.623
Invariant feature; MBEV, F 0.512 0.487 0.517 1.000 0.941 1.000 0.440 0.435 0.440 0.443 0.444 0.446
Invariant feature; MBEV, KW 0.495 0.487 0.500 0.941 1.000 0.941 0.431 0.433 0.431 0.428 0.435 0.432
Invariant feature; MBEV, SAM 0.512 0.487 0.517 1.000 0.941 1.000 0.440 0.436 0.440 0.443 0.444 0.447
Invariant set; F 0.545 0.540 0.553 0.440 0.431 0.440 1.000 0.933 1.000 0.738 0.730 0.749
Invariant set; KW 0.549 0.555 0.555 0.435 0.433 0.436 0.933 1.000 0.933 0.719 0.743 0.729
Invariant set; SAM 0.546 0.541 0.553 0.440 0.431 0.440 1.000 0.933 1.000 0.739 0.731 0.750
Global scaling; F 0.626 0.604 0.625 0.443 0.428 0.443 0.738 0.719 0.739 1.000 0.925 0.994
Global scaling; KW 0.618 0.621 0.617 0.444 0.435 0.444 0.730 0.743 0.731 0.925 1.000 0.918
Global scaling; SAM 0.623 0.600 0.623 0.446 0.432 0.447 0.749 0.729 0.750 0.994 0.918 1.000
  1. Values of >0.9 are highlighted in bold.