Table 3

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

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

Values of >0.9 are highlighted in bold.

Hoffmann et al. Genome Biology 2002 3:research0033.1   doi:10.1186/gb-2002-3-7-research0033