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Bioinformatics programs served to evidentiate the differentially expressed sequences and the design of the microarray allowed hierarchical clustering of patients and controls.
The design of the microarray included 2 probes (sometimes 3) per each EST, therefore each EST was represented twice or three times on the slide.
We would like to thank Scott Tighe and Tim Hunter for their contribution to the experimental design of the microarray experiments.
Microarray hybridization was performed as described in Fig. 2. The symbols (1) to (4) in Fig. 2 indicate the comparative design of the microarray analysis, which was performed in triplicate with a dye swap experiment using cDNA microarray spotted onto different locations of the slide glass triplicates.
(A ) Design of the microarray experiment.
EM provided assistance with the design of the microarray study.
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The experimental design of the microarrays was devised to enrich for genes that selectively regulate hypoxic sensitivity.
JDG contributed to the design of the microarrays and analysis of the data.
The design of the microarrays based on the Agilent technology and the associated methods have been extensively validated [ 5, 28].
The authors thank Ruth Jüngling, University of Frankfurt, for technical advice, and the Array-On team for expert help with design of the microarrays.
Firstly, the DNA microarray constructed with oligonucleotides representing all the coding regions from L. johnsonii strain NCC533 was tested in a self-hybridization experiment to validate the design of the microarrays.
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