To study whether the genes identified by microarray analysis belonged to common pathways, we performed GO analysis on all 143 genes.
Earlier microarray analysis of strains belonging to the M. avium complex identified large regions of insertions/deletions [ 18] in addition to 3 regions of large inversions between M. av and M. ap genomes [ 2].
Here we performed a focused microarray analysis of genes belonging to NOTCH and WNT signaling cascades, as well as genes related to AD and apoptosis pathways in cerebellar samples from autistic individuals, to provide further evidence for pathological relevance of these cascades for autism.
In particular, 11 out of 19 of these known SOP enriched genes are in common with a whole-genome microarray analysis performed with cells belonging to proneural cell clusters [22].
All genes encoding secreted proteins and identified by DNA microarray analysis were confirmed as belonging to the PlcR regulon, including BC2463a, BC3185a and BC5101a for which microarray results could not be produced, except for colC, for which no data from previous reports was available.
Next, we performed a focused microarray analysis of the genes belonging to each subnetwork by using samples from the cerebellum of autistic patients versus controls.
Microarray analysis revealed that genes belonging to the actinorhodin biosynthesis cluster in M145 were up-regulated slightly ahead of the appearance of blue pigment in culture supernatants.
Curiously, we note that approximately half of the genes identified in the microarray analysis were found in other studies to belong to the σB regulon, suggesting a regulatory link between LhrA and the alternative stress sigma factor σB.
A loop design was employed for microarray analysis [42], with each CNS region compared to another region belonging to the same species, on multiple arrays per species.
The subsequent microarray analysis revealed that ibuprofen treatment for 24 h affected genes belonging to "cell cycle" pathways (Table 3).
Recently, DNA microarray analysis of Drosophila S2 cells infected with Wolbachia demonstrated an increase in transcripts belonging to the Toll and Imd immune signaling pathways, and the antimicrobial peptides attacin and diptericin [71].
