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In contrast to the fairly standard approaches used to generate RNA-seq data, there were significant alterations to multiple microarray protocols.
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Because there are multiple microarray elements matched for some genes, the heatmap and line plot are displayed according to microarray element IDs.
RNA isolation and microarray protocols were carried out as described in Hu et al [30].
All microarray protocols were carried out by Mogene LLC (St . Louis MO, USA), an Agilent Certified Service Provider.
Microarray hybridization and washing conditions were based on E. coli cDNA microarray protocols [ 66] with some modifications.
Results of the study showed specificity of genotyping Y. enterocolitica using multiple microarray-based assays.
The RNA preparation was performed as described for the microarray protocol, without RNA purification.
The microarray protocol follows previously published methods [ 82, 83].
The one-colour microarray protocol is described in manual: G4140-90040.
The microarray protocol follows previously published methods [ 67].
J-MU established the microarray protocol and helped in the design of the microarray experiments.
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