Download section

All downloads are also available from ftp-directory : ftp directory

File Description
PLAZA_PGE_poster.pptxPoster for PLAZA 2.5
PLAZA_flyer_2.5.pdfFlyer presenting the capabilities of the PLAZA 2.5 platform.
PLAZA_flyer_3.0.pdfFlyer presenting the capabilities of the PLAZA 3.0 platform.
PLAZA_presentation.pptPresentation on the standard capabilities of PLAZA, including several frequently asked questions on topics concerning wetlab research. Presented at PSB Weekly Science Meeting 2010-01-22.

Species Annotation (CSV) Annotation (GFF)
Amborella trichopoda Not Available Not Available
Arabidopsis lyrata Not Available Not Available
Arabidopsis thaliana Not Available Not Available
Beta vulgaris Not Available Not Available
Brassica rapa Not Available Not Available
Capsella rubella Not Available Not Available
Carica papaya Not Available Not Available
Chlamydomonas reinhardtii Not Available Not Available
Citrullus lanatus Not Available Not Available
Citrus sinensis Not Available Not Available
Cucumis melo Not Available Not Available
Eucalyptus grandis Not Available Not Available
Fragaria vesca Not Available Not Available
Glycine max Not Available Not Available
Gossypium raimondii Not Available Not Available
Lotus japonicus Not Available Not Available
Malus domestica Not Available Not Available
Manihot esculenta Not Available Not Available
Medicago truncatula Not Available Not Available
Oryza sativa ssp. japonica Not Available Not Available
Ostreococcus lucimarinus Not Available Not Available
Physcomitrella patens Not Available Not Available
Populus trichocarpa Not Available Not Available
Prunus persica Not Available Not Available
Ricinus communis Not Available Not Available
Solanum lycopersicum Not Available Not Available
Solanum tuberosum Not Available Not Available
Thellungiella parvula Not Available Not Available
Theobroma cacao Not Available Not Available
Vitis vinifera Not Available Not Available
Zea mays Not Available Not Available
All species Not Available Not Available

Species ID conversion
Amborella trichopoda id_conversion.atr.csv.gz (227.08 KB)
Arabidopsis lyrata id_conversion.aly.csv.gz (458.86 KB)
Arabidopsis thaliana id_conversion.ath.csv.gz (354.17 KB)
Beta vulgaris id_conversion.bvu.csv.gz (367.28 KB)
Brassica rapa id_conversion.bra.csv.gz (207.06 KB)
Capsella rubella id_conversion.cru.csv.gz (290.11 KB)
Carica papaya id_conversion.cpa.csv.gz (160.20 KB)
Chlamydomonas reinhardtii id_conversion.cre.csv.gz (180.26 KB)
Citrullus lanatus id_conversion.cla.csv.gz (122.01 KB)
Citrus sinensis id_conversion.csi.csv.gz (282.63 KB)
Cucumis melo id_conversion.cme.csv.gz (282.54 KB)
Eucalyptus grandis id_conversion.egr.csv.gz (347.39 KB)
Fragaria vesca id_conversion.fve.csv.gz (173.58 KB)
Glycine max id_conversion.gma.csv.gz (570.77 KB)
Gossypium raimondii id_conversion.gra.csv.gz (391.15 KB)
Lotus japonicus id_conversion.lja.csv.gz (165.62 KB)
Malus domestica id_conversion.mdo.csv.gz (395.04 KB)
Manihot esculenta id_conversion.mes.csv.gz (334.23 KB)
Medicago truncatula id_conversion.mtr.csv.gz (376.48 KB)
Oryza sativa ssp. japonica id_conversion.osa.csv.gz (312.22 KB)
Ostreococcus lucimarinus id_conversion.olu.csv.gz (48.91 KB)
Physcomitrella patens id_conversion.ppa.csv.gz (276.32 KB)
Populus trichocarpa id_conversion.ptr.csv.gz (426.70 KB)
Prunus persica id_conversion.ppe.csv.gz (314.05 KB)
Ricinus communis id_conversion.rco.csv.gz (292.36 KB)
Solanum lycopersicum id_conversion.sly.csv.gz (181.39 KB)
Solanum tuberosum id_conversion.stu.csv.gz (353.70 KB)
Thellungiella parvula id_conversion.tpa.csv.gz (121.93 KB)
Theobroma cacao id_conversion.tca.csv.gz (293.00 B)
Vitis vinifera id_conversion.vvi.csv.gz (144.45 KB)
Zea mays id_conversion.zma.csv.gz (484.60 KB)
All species Not Available

Species Gene Ontology Interpro MapMan
Amborella trichopoda go.atr.csv.gz (11.75 MB) interpro.atr.csv.gz (1.41 MB) mapman.atr.csv.gz (257.00 B)
Arabidopsis lyrata go.aly.csv.gz (20.76 MB) interpro.aly.csv.gz (1.98 MB) mapman.aly.csv.gz (145.63 KB)
Arabidopsis thaliana go.ath.csv.gz (31.31 MB) interpro.ath.csv.gz (1.88 MB) mapman.ath.csv.gz (248.97 KB)
Beta vulgaris go.bvu.csv.gz (15.85 MB) interpro.bvu.csv.gz (1.55 MB) mapman.bvu.csv.gz (902.00 B)
Brassica rapa go.bra.csv.gz (26.22 MB) interpro.bra.csv.gz (2.73 MB) mapman.bra.csv.gz (297.40 KB)
Capsella rubella go.cru.csv.gz (20.14 MB) interpro.cru.csv.gz (1.94 MB) mapman.cru.csv.gz (221.25 KB)
Carica papaya go.cpa.csv.gz (15.30 MB) interpro.cpa.csv.gz (1.40 MB) mapman.cpa.csv.gz (19.02 KB)
Chlamydomonas reinhardtii go.cre.csv.gz (6.62 MB) interpro.cre.csv.gz (952.34 KB) mapman.cre.csv.gz (109.02 KB)
Citrullus lanatus go.cla.csv.gz (13.20 MB) interpro.cla.csv.gz (1.43 MB) mapman.cla.csv.gz (273.00 B)
Citrus sinensis go.csi.csv.gz (17.19 MB) interpro.csi.csv.gz (1.77 MB) mapman.csi.csv.gz (223.66 KB)
Cucumis melo go.cme.csv.gz (13.89 MB) interpro.cme.csv.gz (1.38 MB) mapman.cme.csv.gz (258.00 B)
Eucalyptus grandis go.egr.csv.gz (19.86 MB) interpro.egr.csv.gz (2.33 MB) mapman.egr.csv.gz (241.13 KB)
Fragaria vesca go.fve.csv.gz (15.15 MB) interpro.fve.csv.gz (1.85 MB) mapman.fve.csv.gz (270.00 B)
Glycine max go.gma.csv.gz (36.46 MB) interpro.gma.csv.gz (3.64 MB) mapman.gma.csv.gz (408.90 KB)
Gossypium raimondii go.gra.csv.gz (26.35 MB) interpro.gra.csv.gz (2.66 MB) mapman.gra.csv.gz (284.84 KB)
Lotus japonicus go.lja.csv.gz (9.65 MB) interpro.lja.csv.gz (1019.04 KB) mapman.lja.csv.gz (266.00 B)
Malus domestica go.mdo.csv.gz (32.65 MB) interpro.mdo.csv.gz (3.74 MB) mapman.mdo.csv.gz (545.10 KB)
Manihot esculenta go.mes.csv.gz (19.19 MB) interpro.mes.csv.gz (2.22 MB) mapman.mes.csv.gz (275.66 KB)
Medicago truncatula go.mtr.csv.gz (22.18 MB) interpro.mtr.csv.gz (2.49 MB) mapman.mtr.csv.gz (267.00 B)
Oryza sativa ssp. japonica go.osa.csv.gz (18.95 MB) interpro.osa.csv.gz (2.71 MB) mapman.osa.csv.gz (334.69 KB)
Ostreococcus lucimarinus go.olu.csv.gz (4.92 MB) interpro.olu.csv.gz (528.75 KB) mapman.olu.csv.gz (294.00 B)
Physcomitrella patens go.ppa.csv.gz (15.71 MB) interpro.ppa.csv.gz (1.59 MB) mapman.ppa.csv.gz (220.34 KB)
Populus trichocarpa go.ptr.csv.gz (26.47 MB) interpro.ptr.csv.gz (2.67 MB) mapman.ptr.csv.gz (303.85 KB)
Prunus persica go.ppe.csv.gz (17.35 MB) interpro.ppe.csv.gz (1.86 MB) mapman.ppe.csv.gz (228.15 KB)
Ricinus communis go.rco.csv.gz (16.66 MB) interpro.rco.csv.gz (1.72 MB) mapman.rco.csv.gz (217.46 KB)
Solanum lycopersicum go.sly.csv.gz (20.28 MB) interpro.sly.csv.gz (1.99 MB) mapman.sly.csv.gz (255.16 KB)
Solanum tuberosum go.stu.csv.gz (19.56 MB) interpro.stu.csv.gz (2.19 MB) mapman.stu.csv.gz (276.00 B)
Thellungiella parvula go.tpa.csv.gz (16.07 MB) interpro.tpa.csv.gz (1.68 MB) mapman.tpa.csv.gz (258.00 B)
Theobroma cacao go.tca.csv.gz (16.90 MB) interpro.tca.csv.gz (1.83 MB) mapman.tca.csv.gz (289.00 B)
Vitis vinifera go.vvi.csv.gz (14.71 MB) interpro.vvi.csv.gz (1.71 MB) mapman.vvi.csv.gz (196.63 KB)
Zea mays go.zma.csv.gz (17.69 MB) interpro.zma.csv.gz (2.22 MB) mapman.zma.csv.gz (344.42 KB)
All species Not available interpro.csv.gz (60.98 MB) mapman.csv.gz (4.98 MB)

Species CDS files Protein files Genome files
Amborella trichopoda Not Available Not Available atr.con.gz (83.74 MB)
Arabidopsis lyrata Not Available Not Available aly.con.gz (52.90 MB)
Arabidopsis thaliana Not Available Not Available ath.con.gz (34.28 MB)
Beta vulgaris Not Available Not Available bvu.con.gz (74.20 MB)
Brassica rapa Not Available Not Available bra.con.gz (78.70 MB)
Capsella rubella Not Available Not Available cru.con.gz (37.20 MB)
Carica papaya Not Available Not Available cpa.con.gz (80.80 MB)
Chlamydomonas reinhardtii Not Available Not Available cre.con.gz (30.24 MB)
Citrullus lanatus Not Available Not Available cla.con.gz (87.98 MB)
Citrus sinensis Not Available Not Available csi.con.gz (79.58 MB)
Cucumis melo Not Available Not Available cme.con.gz (201.71 MB)
Eucalyptus grandis Not Available Not Available egr.con.gz (185.47 MB)
Fragaria vesca Not Available Not Available fve.con.gz (64.00 MB)
Glycine max Not Available Not Available gma.con.gz (269.87 MB)
Gossypium raimondii Not Available Not Available gra.con.gz (214.05 MB)
Lotus japonicus Not Available Not Available lja.con.gz (54.71 MB)
Malus domestica Not Available Not Available mdo.con.gz (386.13 MB)
Manihot esculenta Not Available Not Available mes.con.gz (127.30 MB)
Medicago truncatula Not Available Not Available mtr.con.gz (112.64 MB)
Oryza sativa ssp. japonica Not Available Not Available osa.con.gz (110.62 MB)
Ostreococcus lucimarinus Not Available Not Available olu.con.gz (3.80 MB)
Physcomitrella patens Not Available Not Available ppa.con.gz (131.09 MB)
Populus trichocarpa Not Available Not Available ptr.con.gz (119.95 MB)
Prunus persica Not Available Not Available ppe.con.gz (63.82 MB)
Ricinus communis Not Available Not Available rco.con.gz (95.47 MB)
Solanum lycopersicum Not Available Not Available sly.con.gz (212.00 MB)
Solanum tuberosum Not Available Not Available stu.con.gz (170.37 MB)
Thellungiella parvula Not Available Not Available tpa.con.gz (33.51 MB)
Theobroma cacao Not Available Not Available tca.con.gz (96.41 MB)
Vitis vinifera Not Available Not Available vvi.con.gz (135.50 MB)
Zea mays Not Available Not Available zma.con.gz (606.92 MB)
All species Not Available Not Available Not Available

Species Anchorpoints
Amborella trichopoda anchorpoints.atr.csv.gz (1.34 KB)
Arabidopsis lyrata anchorpoints.aly.csv.gz (66.47 KB)
Arabidopsis thaliana anchorpoints.ath.csv.gz (82.85 KB)
Beta vulgaris anchorpoints.bvu.csv.gz (8.78 KB)
Brassica rapa anchorpoints.bra.csv.gz (263.74 KB)
Capsella rubella anchorpoints.cru.csv.gz (88.81 KB)
Carica papaya anchorpoints.cpa.csv.gz (6.55 KB)
Chlamydomonas reinhardtii anchorpoints.cre.csv.gz (832.00 B)
Citrullus lanatus anchorpoints.cla.csv.gz (25.00 KB)
Citrus sinensis anchorpoints.csi.csv.gz (22.31 KB)
Cucumis melo anchorpoints.cme.csv.gz (17.96 KB)
Eucalyptus grandis anchorpoints.egr.csv.gz (34.95 KB)
Fragaria vesca anchorpoints.fve.csv.gz (14.70 KB)
Glycine max anchorpoints.gma.csv.gz (447.73 KB)
Gossypium raimondii anchorpoints.gra.csv.gz (161.35 KB)
Lotus japonicus anchorpoints.lja.csv.gz (3.36 KB)
Malus domestica anchorpoints.mdo.csv.gz (76.13 KB)
Manihot esculenta anchorpoints.mes.csv.gz (90.63 KB)
Medicago truncatula anchorpoints.mtr.csv.gz (42.75 KB)
Oryza sativa ssp. japonica anchorpoints.osa.csv.gz (45.66 KB)
Ostreococcus lucimarinus anchorpoints.olu.csv.gz (2.69 KB)
Physcomitrella patens anchorpoints.ppa.csv.gz (15.89 KB)
Populus trichocarpa anchorpoints.ptr.csv.gz (192.04 KB)
Prunus persica anchorpoints.ppe.csv.gz (73.43 KB)
Ricinus communis anchorpoints.rco.csv.gz (15.74 KB)
Solanum lycopersicum anchorpoints.sly.csv.gz (48.90 KB)
Solanum tuberosum anchorpoints.stu.csv.gz (42.47 KB)
Thellungiella parvula anchorpoints.tpa.csv.gz (71.25 KB)
Theobroma cacao anchorpoints.tca.csv.gz (41.33 KB)
Vitis vinifera anchorpoints.vvi.csv.gz (26.60 KB)
Zea mays anchorpoints.zma.csv.gz (118.17 KB)
All species anchorpoints.csv.gz (2.28 MB)

Data type Gene families (HOM) Sub families (ORTH)
genefamily_datagenefamily_data.hom.csv.gz (5.87 MB)genefamily_data.orth.csv.gz (6.85 MB)
genefamily_enrichmentgenefamily_enrichment.hom.csv.gz (2.87 MB)genefamily_enrichment.orth.csv.gz (11.09 MB)

Orthology type Description Data file
BHIF Orthologs detected through best-BLAST hits integrative_orthology.BHIF.csv.gz (230.44 MB)
ORTHO Orthologs detected through OrthoMCL clustering integrative_orthology.ORTHO.csv.gz (187.83 MB)
TROG Orthologs detected through phylogenetic trees integrative_orthology.TROG.csv.gz (197.69 MB)
anchor_point Orthologs detected through colinearity information integrative_orthology.anchor_point.csv.gz (67.78 MB)