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The microarray slides consisted of 5,760 amplified cDNA fragments from soybean libraries prepared from RNA of developing seeds [ 86].
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Custom made microarray slides, consisting of 44,000 60-mer oligonucleotide probes covering the entire S. venezuelae genome, were designed and produced by Oxford Gene Technologies (Oxford, UK).
In brief, two tissue microarray slides consisting of human breast cancer (140 and 70) cores and adjacent benign breast tissue (10 and 24) cores were purchased from the Biomax US (Rockville, MD, USA).
Each microarray slide consisted of approximately 13,000 elements including target genes and quality controls.
For immunohistochemical analysis, 4 μm tissue microarray (TMA) slides consisting of triplicate punches of 103 cervical cancer patients were deparaffinised and rehydrated.
Transcriptomic raw data were obtained by scanning of the microarray slides using Illumina GenomeStudio V2010.3.
Labelled samples were hybridised to the microarray slides in an Amersham Lucidea Automated Slide Processor.
In the preparation of microarray slides the amount of DNA immobilized on the slide varies.
For the first set of microarray slides some slides were discarded due to uneven hybridisation.
The microarray slides contained 8 identical arrays per slide, which could each be individually hybridized [ 14].
We designed and ordered custom DNA microarrays through Agilent, where each slide consisted of eight identical subarrays of 15 000 individual features.
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