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Many problems that plague microarrays (inaccuracies in background correction, dye-gene effects, skew toward one channel, dye crosstalk, and contaminating fluorescence) cannot be accurately assessed in data from filter-based microarray scanners due to this limitation and this can lead to erroneous data [ 9, 17].
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The depth of focus is intrinsically limited by diffraction to <∼λ/NA, ∼60 μm, but in practice, the positioning of the microarray substrates in the focal plane is somewhat less restricted due to limited resolution of microarray scanners.
Fluorescent images of hybridized microarrays were acquired using the GenePix 4000B and GenePix 4200AL microarray scanners (Axon Instruments, Union City, CA).
High throughput was achieved by using fluorescent microarray scanners.
The extent of biofilm formation was determined using a microarray scanner from changes in fluorescence intensities due to FUN 1 metabolic processing.
Finally, fluorescence images were captured using a microarray scanner (Axon).
Slides were scanned on an Agilent G2505C DNA microarray scanner.
The BeadChips were analyzed using the Illumina iScan N240 microarray scanner (Illumina, CA, USA).
The samples were finally transferred to a microarray scanner for further LSC analysis.
The chip images were obtained by LuxScanTM 10 K Microarray Scanner (CapitalBio, Beijing, China) using Cy3 settings.
After washing, the slide image files were generated by a DNA microarray scanner (G2505B; Agilent Technologies).
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