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We aggregated 2178 gene lists generated from microarray experiments included in Gene Expression Omnibus (GEO).
The microarray experiments included in these analyses are outlined in Table 1 (Additional file 2, Table S1).
The microarray experiments included in this manuscript have been submitted to ArrayExpress: accession numbers E-MEXP-697 and E-MEXP-709.
It is worth noted that all Arabidopsis microarray experiments included in the meta-analysis overlooked the osmoregulation-related genes [ 5, 26, 27], and for other species only partial results were discussed [ 4, 7, 28- 30, 54].
The three samples for the microarray experiments included young females ("young"), 14 days old females cultured under diapause-preventing ("reproducing") and 14 days old females cultured under diapause-inducing conditions ("diapausing").
The accuracy of microarray profiles and design was directly evaluated by RNA-Seq analysis of the same samples as those used for one of the microarray experiments included in PiceaGenExpress.
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Some basic issues of microarray experiments, including experimental design, data analysis, and gene validation, are also discussed.
Examples of temporal microarray experiments include studies of the cell cycles in yeast [1] and the circadian cycles in mice [2].
JR and JL performed all microarray experiments including CGH and gene expression.
KYY and MRP performed the microarray experiments including all statistical and bioinformatic analyses.
GAP and DAM designed the microarray experiments including expression analysis pipeline, GAP participated in writing the manuscript.
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