Investigation of the molecular profile of basal cell carcinoma using whole genome microarrays

Table 1 Q.C. Analysis of Microarray Results

Specimen I.D.	Present Call (%)	Background	Noise	Scaling Factor	3'/M Ratio GAPDH
BCC26	49.9	52.6	1.82	0.94	14.56
JT2	50.2	63.6	2.05	0.795	1.41
JT3	49.9	53.85	1.74	1.037	1.27
BCC4	48.8	55.72	1.87	0.868	1.82
JT6	41.8	50.33	1.56	2.431	2.46
JT11	39	48.93	1.58	3.173	2.17
JT8	43	46.94	1.48	2.463	1.95
JT9	46.5	53.85	1.71	1.434	1.66
T16	43.4	51.87	1.62	1.896	3.25
JT12	38.1	53.09	1.7	2.709	2.86
JT13	47.1	54.46	1.67	1.374	1.67
JT4	46.5	55.73	1.77	1.18	1.66
JT5	45.8	53.86	1.75	1.453	1.86
T24	38.5	57.3	1.83	2.905	3.0
T25	34.1	56.57	1.77	3.988	3.1
T28	34.3	56.32	1.79	3.771	3.6
JT7	39.6	48.25	1.56	3.098	2.52
T11	43.3	50.10	1.61	2.416	2.1
T19	32.2	54.24	1.7	4.539	3.1
T22	29.1	49.14	1.59	6.639	5.86
N1	46.6	46.38	1.46	1.571	1.67
N2	44.0	47.85	1.56	1.565	1.8
N3	42.5	50.84	1.63	2.105	2.46
N5	46.7	48.96	1.54	1.417	1.85
N6	46.2	46.92	1.44	1.821	2.39

Note: Acceptable Q.C. cut-offs, based on high quality cell line RNA analysis, for background is <100; noise <3; scaling factor <3 fold between specimens being compared; 3'/M ratio <3 (Affymetrix Inc. "Genechip^® Expression Analysis Data Analysis Fundamentals" [16]).

ISSN: 1476-4598