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Microarray experiments used Human Genome U133 Plus 2.0 arrays from Affymetrix, containing 54675 probe sets.
The entire microarray experiments used in this study are listed in Additional file 5.
Publically available Arabidopsis microarray experiments used for comparisons with Hypericum flower transcriptomes.
The raw and analyzed data for the 24 microarray experiments used in this study have been submitted to Gene Expression Omnibus (SERIES ID = GSE975, available online [ 58]).
A yeast study showed that the ability to correctly identify co-regulated genes in co-expression analysis is strongly dependent on the number of microarray experiments used [ 14].
Table 4 shows the results of one experiment in which we utilized the data of the seven independent microarray experiments used to calculate the reproducibility shown in Table 2.
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Extracted RNA was then used in microarray experiments using Illumina Sentrix HT-12_v3_BeadChip arrays (Illumina, San Diego, California).
Microarray experiments using mRNA from air-dried leaves and roots of rice were performed in an attempt to study genes involved in acute dehydration response.
Microarray experiments using mRNA from air-dried leaves and roots of rice were performed in an attempt to study genes involved in dehydration response.
All reactions were performed on the cDNA synthesized from the same RNA extraction as the microarray experiments using SuperScript™ III First-Strand Synthesis SuperMix (Invitrogen, Carlsbad, CA, USA).
All qRT-PCR reactions were performed on complementary DNA (cDNA), synthesized from the same RNA extracted for use in the microarray experiments, using SuperScript™ III First-Strand Synthesis SuperMix (Invitrogen, CA, USA).
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