Examining smoking-induced differential gene expression changes in buccal mucosa

BMC Medical Genomics

Table 5 Microarray quality metrics

Samples	Scaling Factor	% Present	NUSE Median	NUSE IQR
Smokers
25a	24.6444	35.9	0.989	0.021
25b	4.532	47.8	0.991	0.021
26a	19.022	31.8	0.989	0.02
26b	3.451	30	1.013	0.04
27a	255.647	6	1.101	0.089
27b	3.713	49.9	0.985	0.021
28a	12.806	22.5	1.027	0.046
28b	4.674	24	1.061	0.073
Nonsmokers
21a	307.934	3.5	1.12	0.097
21b	6.852	35	1	0.024
22a	22.185	40.7	0.998	0.019
22b	4.808	47.6	0.993	0.022
23a	20.057	33.6	0.987	0.02
23b	4.689	44.5	0.991	0.022
24a	21.886	39.5	0.988	0.02
24b	3.926	50.9	0.988	0.021

In bold, values indicating poor quality array. Scaling Factor and % Present were determined with GCOS. NUSE, [25] was determined by probe level modelling using the Bioconductor AffyPLM package, see Materials and Methods; IQR, interquartile range.

ISSN: 1755-8794