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Neurospora microarray slides are available from the FGSC (http://www.fgsc.net/).
The assignments of samples on microarray slides are shown in Additional file 1: Table S2.
Arabidopsis cDNA microarray slides are based on the GEM1 clone set (8000 ESTs) purchased from InCyte Genomics, Palo Alto, CA, USA [ 4].
However, since whole genome microarray slides are not always used, a proposed improvement is to analyse the data in terms of only the genes that were on the slide.
In addition, there are several high throughput scanning devices that are capable of batch microarray scanning in which the microarray slides are exposed to laboratory ozone levels for prolonged and varying periods of time.
iii) Data Filtration, normalization, and analysis Microarray slides are scanned in both Cy3 (532 nm) and Cy5 (635 nm) channels using Axon GenePix 4000B scanner (Axon Instruments, Inc., Foster City, CA) with a 10-micron resolution.
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Spotted microarray slides were obtained from the Pathogen Functional Genomics Resource Center at JCVI.
All microarray slides were incubated using an 8 well gasket slide and incubation cassette system (Agilent Technologies) and were protected from light throughout the procedure.
The microarray slides were custom-designed and contained 101,720, 60 mer probes.
The microarray slides were scanned using ScanArray Express.
Microarray slides were scanned immediately using an Agilent microarray scanner.
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