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

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

ISSN: 1474-760X