Table 1.

Significance analysis of microarray (SAM) identifying GALM gene as regulated by retinoic acid in THP-1 cells^a

Array experiment numberb	False discovery rate (FDR)	SAM Delta value	# genes identified	Affymetrix Feature ID	d.valuec	q.valuec
Expt. 1	0.0001	29.7	60	234974_at	43.3197	0.0000429
Expt. 1	0.0012	16.7	147	235256_s_at	27.0897	0.0005073
Expt. 2	0.0024	18.1	10	235256_s_at	44.8792	0.0001182
Expt. 2	0.0024	18.1	10	234974_at	32.7839	0.0017131

^aGALM, Entrez Gene number 130589.

^bData designated Expt 1 included 21 arrays from a 2 × 2 design which included: control (n = 6), RA alone (n = 5), TNFα alone (n = 5) and RA and TNFα combined (n = 5). Data designated Expt 2 included 17 arrays from a time course: t=0 (n = 6), and treatment with 20 nM RA for 2h (n = 2), 6 h (n = 2), 10 h (n = 3), 16 h (n = 2) and 40 h (n = 2) (see Materials and Methods for culture conditions).

^cFor SAM (20) [also see http://www-stat.stanford.edu/~tibs/SAM/index.html], the d value is an F-like statistic that represents the normalized distance between group means; the q value represents the lowest FDR for this gene.