Following microarray analyses, genes were chosen based on fold change and relevance.
After microarray analyses, genes were filtered by fold changes greater than 1.5, and 9,241 genes were initially identified to have been altered, among which 66 and 104 cellular genes were upregulated and downregulated, respectively, under the criteria of a fold change of 2 or greater and a false discovery rate (FDR) of 10%.
Whole-genome microarray analyses identified gene acquisitions and gene losses11.
In addition to the global view of gene expression provided by microarray analyses, individual gene expression patterns can be determined.
However, an alternative and very promising approach consists in combining in silico TFBS predictions in the gene promoter regions and microarray analyses, comparing gene expression of cells in which a TF is either over-expressed or deleted [ 5- 7].
Based on the results from the secondary assay and gene expression microarray analyses, eight genes were chosen for validation using siRNA knockdown.
Microarray analyses and gene deletion identified a protease on O-island 50, gene Z1787, as a potential virulence factor responsible for mediating EHEC inhibition of the interferon (IFN -γ-Jak1,2-STAT-1 sIFN -γ-Jak1,2-STAT-1ascade.
cDNA microarray analyses for gene expression profiling and potential identification of target genes for diagnostic or therapeutic purposes are ongoing (Shirota et al, 2001; Takeo et al, 2001; Xu et al, 2001).
Mouse ovarian surface epithelial (MOSE) cells were used to identify stage-dependent changes in gene expression levels and signal transduction pathways by mouse whole genome microarray analyses and gene ontology.
Our microarray analyses of gene expression in single R15 neurons have identified a subset of genes, 572 of which are bi-directionally regulated during aging.
Microarray analyses of gene expression are widely used, but reports of the same analyses by different groups give widely divergent results, and raise questions regarding reproducibility and reliability.
