All databases have been obtained from large-scale cDNA or genomic DNA sequencing projects. These include several fungal and plant model organisms. All sequences are public and most have been obtained from GenBank. The current public PipeOnline databases are as listed below.
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| 7081 | 4014 | M. crystallinum All ESTs (Bohnert, et al. Libraries) | ||
| 1337 | 1080 | Arabidopsis thaliana AA library | ||
| 860 | 658 | Arabidopsis thaliana AB library | ||
| 838 | 697 | Arabidopsis thaliana AC library | ||
| 301 | 200 | Arabidopsis thaliana AF library | ||
| 3336 | 2378 | Arabidopsis thaliana ESTs (all stress-genomics libraries) | ||
| 576 | 536 | All Hordeum vulgare ESTs | ||
| 96 | 91 | Hordeum vulgare HB Library | ||
| 480 | 451 | Hordeum vulgare HC Library | ||
| 286 | 229 | Mesembryanthemum crystallinum ME ESTs | ||
| 3702 | 2552 | Oryza sativa ESTs (all stress-genomics libraries) | ||
| 660 | 417 | Arabidopsis thaliana AD ESTs | ||
| 1191 | 994 | Selaginella All ESTs | ||
| 4359 | 1996 | M. crystallinum All ESTs (Cushman, et al. Libraries) | ||
| 12778 | 4838 | M. crystallinum ESTs (all stress-genomics libraries) | ||
| 3204 | 2008 | Dunaliella ESTs (all stress-genomics libraries) | ||