| Integrative databases |
| SEED |
http://www.theseed.org/wiki/index.php/Main_Page |
| STRING |
http://string.embl.de/ |
| JCVI CMR |
http://cmr.jcvi.org/tigr-scripts/CMR/CmrHomePage.cgi |
| MicrobesOnline |
http://www.microbesonline.org/ |
| JGI |
http://img.jgi.doe.gov/cgi-bin/pub/main.cgi |
| Phylogenetic occurrence |
| PHYDBAC |
http://igs-server.cnrs-mrs.fr/phydbac/ |
| MBGD |
http://mbgd.genome.ad.jp/ |
| NMPDR Signature Genes tool |
http://www.nmpdr.org/FIG/wiki/rest.cgi/NmpdrPlugin/search?Class=SigGenes |
| JGI Phylogenetic Profiler |
http://img.jgi.doe.gov/cgi-bin/pub/main.cgi?section=PhylogenProfile&page=phyloProfileForm |
| Gene fusion events |
| FusionDB |
http://igs-server.cnrs-mrs.fr/FusionDB/main.html |
| Regulatory sites |
| SwissRegulon |
http://www.swissregulon.unibas.ch |
| PRODORIC |
http://www.prodoric.de |
| Microarray data |
| GenExpDB |
http://chase.ou.edu/oubcf/ |
| ATTED |
http://www.atted.bio.titech.ac.jp/ |
| Golm Transcriptome Database |
http://csbdb.mpimp-golm.mpg.de/csbdb/dbxp/ath/ath_xpmgq.html |
| Protein–protein interaction |
| DIP |
http://dip.doe-mbi.ucla.edu/dip/Main.cgi |
| APID |
http://bioinfow.dep.usal.es/apid/index.htm |
| eNet |
http://ecoli.med.utoronto.ca/ |
| Plant organellar proteomes |
| PPDB |
http://ppdb.tc.cornell.edu/ |
| SUBA II |
http://www.plantenergy.uwa.edu.au/suba2/ |
| Plant phenomes |
| RAPID |
http://rarge.gsc.riken.jp/phenome/ |
| SeedGenes |
http://www.seedgenes.org/ |
| Chloroplast2010 |
http://www.plastid.msu.edu/ |
| Protein structures |
| PDB |
http://www.rcsb.org/pdb/home/home.do |
| PHYRE |
http://www.sbg.bio.ic.ac.uk/phyre/ |
| PSIPRED GenTHREADER |
http://bioinf.cs.ucl.ac.uk/psipred/ |
| Orphan enzymes |
| ORENZA |
http://www.orenza.u-psud.fr/ |
| ADOMETA |
http://vitkuplab.cu-genome.org/html/adometa/adometa.html |
