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The hybridized arrays were scanned, and raw data were extracted using the Microarray Analysis Suite 5.0 (MAS5; Affymetrix).
The scanned images were analyzed using the Microarray Analysis Suite 5.0 (MAS5, Affymetrix).
All data were analysed using the microarray analysis and visualization platform R2 (http://r2.amc.nl).
Statistical over-representation of GO categories was tested through a hypergeometric test followed by the Benjamini Hochberg FDR correction using the microarray analysis tool GOToolBox.
Lovatt et al. using the microarray analysis showed that astrocytes and neurons each express transcripts predicting individual self-sufficiency in both glycolysis and oxidative metabolism [ 75].
From these results a gDNA cell intensity file (.cel file) was generated using the Microarray Analysis Suite software (MAS, v5.0, Affymetrix).
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The G. sulfurreducens RpoN regulon was identified using the microarray transcriptome analysis combined with the computational analysis.
Raw data were automatically processed using the microarray data analysis software tool MADA, developed in-house.
Numeric data was extracted from the two-channel hybridization images using the microarray image analysis software, BlueFuse (BlueGnome Ltd ,Cambridge).
Fluorescence intensities were recorded, and data processing was performed by using the Microarray Image Analysis software (Phadia).
The apparent differential expression between normal and LPS injected animals was not significant using in the microarray analysis.
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