Table II.
Overview of some of the most popular plant gene expression microarray platforms and the number of available experiments in ArrayExpress
The Arabidopsis ATH1 array is the most frequently used microarray, followed by the CATMA 25k and 23k arrays. In all, approximately 750 Arabidopsis microarray experiments have been published so far. Rice (Oryza sativa) and barley (Hordeum vulgare) are the second and third plant species in terms of microarray experiments published. Soybean (Glycine max) also has a high number of arrays, but this is due to a single very large experiment containing 2,521 arrays. IPK, Leibniz Institute of Plant Genetics and Crop Plant Research; TIGR, The Institute for Genomic Research.
| Species | Provider | Array Format | Array Name | Experiments | Arrays |
|---|---|---|---|---|---|
| Arabidopsis | Affymetrix | 8K | AG | 41 | 352 |
| Affymetrix | 22K | ATH1 | 554 | 8,895 | |
| Agilent | 22K | Arabidopsis 2 | 34 | 253 | |
| Agilent | 44K | Arabidopsis 3 | 7 | 60 | |
| CATMA | 25K | CATMA2_URGV to CATMA2.3_URGV | 83 | 851 | |
| CATMA | 23K | CATMA Arabidopsis 23K array | 50 | 1,290 | |
| TIGR | 26K | TIGR Arabidopsis whole genome | 6 | 264 | |
| Rice | Affymetrix | 57K | GeneChip Rice Genome Array | 29 | 418 |
| Agilent | 21K | Agilent Rice Oligo Microarray | 22 | 164 | |
| Barley | Affymetrix | 22K | GeneChip Barley Genome Array | 35 | 1,165 |
| IPK | 6K + 4K | IPK barley PGRC1_A and B | 7 | 324 | |
| Medicago | Affymetrix | 61K | GeneChip Medicago Genome Array | 19 | 218 |
| Maize | Affymetrix | 17K | GeneChip Maize Genome Array | 22 | 370 |
| Soybean | Affymetrix | 61K | GeneChip Soybean Genome Array | 22 | 3,236 |
| Tomato (Solanum lycopersicum) | Affymetrix | 10K | GeneChip Tomato Genome Array | 6 | 127 |
| Grape (Vitis vinifera) | Affymetrix | 16K | GeneChip Vitis vinifera Genome Array | 6 | 239 |
| Wheat (Triticum aestivum) | Affymetrix | 61K | GeneChip Wheat Genome Array | 25 | 811 |
| Total | 968 | 19,037 |