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As the ultra high throughput sequencing technologies become more affordable and acceptable, more and more organisms will be sequenced at the transcriptomic level, leading to an increasing demand for making microarray tools in the foreseeable future.
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Transcriptome information was applied to the design of a microarray tool in S. senegalensis that was successfully tested and validated by qPCR.
Core identification numbers were assigned using a tumor tissue microarray tool implemented in Metafer.
The SAM package offers the advantage over other microarray analysis tools in that it does not presume equal variance or independence of genes (or both), scenarios that are often violated in biological systems [47].
We report the construction and validation of a high-density oligonucleotide-based microarray tool for functional genomics studies in melon.
We present here the creation and validation of the first coffee oligonucleotide-based microarray tool for functional genomic studies in coffee.
The Ved and PS microarray datasets were compared using the Significance Analysis of Microarrays (SAM) tool in the TM4 software package [ 66] and differentially expressed genes are listed in Additional file 11: Table S8.
Functional principal component analysis and mixture models have become popular dimension reduction tools in microarray studies to cluster genes of similar temporal patterns [6] [12].
Even though microarrays served as important tools in globally identifying ccgs in various different tissues, they also presented some limitations.
DNA microarrays are particularly useful tools in this aspect: after collecting RNA samples from either tissue or cell cultures, cDNA is produced via a retrotranscriptase and hybridized with DNA probes attached to the surface of a manufactured chip.
The DAVID tool was developed for GO-ranking, and is independent of methodological differences between the microarray analyses tools used in this study.
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