Downstream targets of methyl CpG binding protein 2 and their abnormal expression in the frontal cortex of the human Rett syndrome brain

Table 1 Summary of transcripts showing differential expression.

Comparison	Number of transcripts that passed 'cut-off'	Number of differentially expressed transcripts
		Fold-change	SAM analysis	Overlap
RTT fc *vs.* CON fc	11,812	34	891	15
RTT fc *vs.* RTT oc	9,334	46	13	9
RTT oc *vs.* CON oc	9,355	21	0	-
CON fc *vs.* CON oc	10,087	13	19	4

The number of genes that passed cut-off were those that were expressed (pixel intensity of greater than 200 in one channel) and undistorted (not 'flagged') in each group of 6 experiments. The number of genes that was deemed significantly differentially expressed is listed for the 'fold change' (1.5 fold change) and the SAM analysis comparison. fc = frontal cortex; oc = occipital cortex. A gene that was differentially expressed between RTT fc vs. CON fc AND RTT fc vs. RTT oc, and not in the CON fc vs. CON oc was considered for further analysis. Column labeled 'overlap' contains the number of transcripts that were differentially expressed in both the fold-change and the SAM analysis.

ISSN: 1471-2202