The Illumina HT-12 BeadChip included 37,804 genes (some probes being not assigned to RefSeq genes). A gene was declared significantly expressed in the dataset, i.e. expressed above background (as measured by the negative controls present on each array), when the detection P-value calculated by Beadstudio was <0.05 in more that 5% of the samples. This resulted in 22,305 genes considered as being significantly expressed in our dataset. After removing 8,058 putative and/or non well characterized genes, i.e. gene names starting by KIAA (n = 165), FLJ (n = 214), HS (n = 4,262), Cxorf (n = 842), MGC (n = 72), LOC (n = 2,503), 12,808 well characterized detected genes remained for analysis.
