"Pathway" "Pathway.source" "V3" "V4" "V5" "V6" "IN ALL DATA SETS" "" "sum.of.scores" "sum.of.genes" "" "" "Glutathione metabolism" "KEGG" "125" "17" "" "" "ORGAN DATA SET" "quantDE" "5.417446" "maxDE" "7.8527397" "ORGAN DATA SET" "Phenylpropanoid Metabolism" "BioPath" "44" "0.0104552761659815" "6" "0.239371711275791" "Plastidial Isoprenoids (Chlorophylls, Carotenoids, Tocopherols, Plastoquinone, Phylloquinone)" "BioPath" "40" "3.62938039398804e-05" "6" "0.00999099425574" "transport " "FunCat" "40" "0" "5" "0" "Lipid signaling" "AcylLipid" "38" "6.91616105658153e-07" "8" "0.017487537109101" "photorespiration" "AraCyc" "32" "1.47951878149602e-24" "6" "1.87939611779299e-05" "Miscellaneous acyl lipid metabolism" "AcylLipid" "32" "3.83922589707415e-05" "6" "0.183005532268963" "Carotenoid and abscisic acid metabolism" "LitPath" "32" "1.79231123315837e-24" "4" "6.01570718088245e-05" "Glucosyltransferases for benzoic acids" "BioPath" "30" "1.06422954595923e-18" "3" "0.000404868124371341" "biogenesis of chloroplast" "FunCat" "30" "6.31896553488575e-06" "4" "0.0252232981538695" "transport facilitation" "FunCat" "30" "0" "4" "0" "Ion channels" "KEGG" "30" "1.08819481554406e-23" "7" "1.02226194037986e-06" "Ligand-Receptor Interaction" "KEGG" "30" "2.70046050890905e-23" "7" "1.40590302210470e-06" "Chloroplastic protein turnover" "BioPath" "28" "1.18938188493468e-27" "4" "1.30491578408531e-05" "hypersensitive response" "TAIR-GO" "28" "4.76994573421533e-31" "3" "1.37966660701518e-05" "photorespiration" "TAIR-GO" "28" "6.1599611803385e-40" "4" "2.90855936470278e-08" "Carotenoid biosynthesis" "BioPath" "26" "1.03136569192447e-18" "3" "0.000195461937932639" "carotenoid biosynthesis" "AraCyc" "26" "5.99910941067757e-22" "3" "7.78504925369634e-05" "energy" "FunCat" "26" "0" "4" "0" "carotenid biosynthesis" "LitPath" "26" "1.19752866353918e-23" "3" "6.18774596136805e-05" "Carbon fixation" "KEGG" "25" "1.48994560508234e-08" "3" "0.0223887614366188" "additional photosystem II components" "BioPath" "24" "3.75100002495191e-06" "3" "0.0261090984439399" "jasmonic acid biosynthesis" "TAIR-GO" "24" "2.54882779972992e-13" "4" "0.000238516715104855" "jasmonic acid biosynthesis" "AraCyc" "24" "2.52191856834111e-16" "4" "6.79717315694353e-05" "photosynthesis" "FunCat" "24" "3.05985510867713e-06" "4" "0.00663254436854018" "Biosynthesis of steroids" "KEGG" "24" "4.90219667384518e-08" "3" "0.00682860231425554" "ATP-dependent proteolysis" "TAIR-GO" "22" "2.59384429807706e-22" "4" "1.15674507361752e-05" "calmodulin binding" "TAIR-GO" "22" "1.43331274964873e-17" "4" "3.06554026669942e-05" "glycine biosynthesis I" "AraCyc" "22" "1.22888762663932e-12" "4" "0.00457782057043548" "superpathway of serine and glycine biosynthesis II" "AraCyc" "22" "6.19929900542227e-19" "4" "0.000192413399089558" "degradation " "FunCat" "21" "3.44304164375427e-11" "3" "0.00508444192696687" "response to ethylene stimulus" "TAIR-GO" "20" "5.08807814072036e-19" "5" "2.11367684900597e-06" "channel / pore class transport" "FunCat" "20" "1.14856366617769e-16" "3" "0.000585338988592312" "Biosynthesis of prenyl diphosphates" "BioPath" "18" "0.00893449432910231" "4" "0.00856138243262997" "carotene biosynthesis" "TAIR-GO" "18" "4.1028993318067e-23" "2" "3.15475166075915e-05" "stress response" "FunCat" "18" "0" "2" "0" "Glyoxylate and dicarboxylate metabolism" "KEGG" "18" "5.48516896035581e-10" "4" "8.11439617232036e-05" "ATP synthase components" "BioPath" "16" "5.60315709404451e-11" "2" "0.00253122994870794" "gluconeogenesis" "AraCyc" "16" "4.9418021277307e-05" "2" "0.108741904386140" "C-compound, carbohydrate catabolism" "FunCat" "16" "1.05282524969708e-05" "2" "0.10225668819331" "metabolism of energy reserves (e.g. glycogen, trehalose)" "FunCat" "16" "0" "3" "0" "nitrogen and sulfur utilization " "FunCat" "15" "1.09351020709832e-08" "3" "0.000154025429665734" "response to water deprivation" "TAIR-GO" "14" "0" "2" "0" "Glycan Biosynthesis and Metabolism" "KEGG" "14" "0.00121537380806722" "3" "0.0201901514149189" "Starch and sucrose metabolism" "KEGG" "14" "0.023435417510628" "3" "0.0355379247706446" "protein degradation " "FunCat" "13" "5.15155556726614e-07" "2" "0.0142889330531251" "Nitrogen metabolism" "KEGG" "13" "0.000531918541958149" "2" "0.0156055103852148" "starch metabolism" "BioPath" "12" "0.00597860163882695" "2" "0.0562417831354072" "flavonol biosynthesis" "AraCyc" "12" "2.41416762555521e-08" "2" "0.0138117834502466" "formaldehyde assimilation I (serine pathway)" "AraCyc" "12" "0.000136125410294884" "2" "0.0519938759579921" "serine-isocitrate lyase pathway" "AraCyc" "12" "0.00523340899455502" "2" "0.108741904386140" "starch degradation" "AraCyc" "12" "1.36804957214192e-07" "2" "0.00605213988289164" "alanine biosynthesis II" "AraCyc" "11" "2.31631694676017e-05" "2" "0.0253960599910039" "ERD1 protease (ClpC-like)" "BioPath" "10" "0" "1" "0" "FtsH protease (many homologues / subcellular localization ambiguous)" "BioPath" "10" "0" "1" "0" "Methionin/SAM/ethylene metabolism from cysteine and aspartate" "BioPath" "10" "0.0474918492174897" "1" "0.220075779486367" "Thylakoid biogenesis and photosystem assembly" "BioPath" "10" "1.03607149751549e-05" "1" "0.0162961664037352" "Transcriptional regulators (chloroplast)" "BioPath" "10" "4.62030248790017e-12" "1" "0.000854283622162558" "ATP synthesis coupled proton transport" "TAIR-GO" "10" "2.84602831701989e-08" "1" "0.00952517026077388" "chloroplast ATP synthase complex" "TAIR-GO" "10" "2.0254071023836e-12" "1" "0.00101417508307356" "cytochrome b6f complex" "TAIR-GO" "10" "2.84602831701989e-08" "1" "0.0139934901491228" "cytochrome b6f complex assembly" "TAIR-GO" "10" "0" "1" "0" "positive regulation of transcription" "TAIR-GO" "10" "3.26943246663373e-10" "1" "0.00297943021600549" "proton transport" "TAIR-GO" "10" "2.84602831701989e-08" "1" "0.00952517026077388" "regulation of transcription" "TAIR-GO" "10" "0" "1" "0" "response to bacteria" "TAIR-GO" "10" "0" "1" "0" "response to toxin" "TAIR-GO" "10" "0" "1" "0" "xenobiotic catabolism" "TAIR-GO" "10" "0" "1" "0" "Calvin cycle" "AraCyc" "10" "0.00461867221972725" "1" "0.256762051409989" "lipases pathway" "AraCyc" "10" "0.000639454069688699" "2" "0.0281825793200238" "biosynthesis of phenylpropanoids" "FunCat" "10" "0.0315459907171173" "1" "0.241057436533840" "biosynthesis of secondary products derived from L-phenylalanine and L-tyrosine" "FunCat" "10" "0.0315459907171173" "1" "0.241057436533840" "C-compound and carbohydrate utilization " "FunCat" "10" "1.80099343966447e-14" "1" "0.000753116004590813" "electron transport and membrane-associated energy conservation " "FunCat" "10" "2.48995429997101e-07" "1" "0.0238969169153093" "sugar, glucoside, polyol and carboxylate catabolism " "FunCat" "10" "5.83943654835514e-06" "1" "0.0626458590348449" "transport ATPases" "FunCat" "10" "0.0175075654856577" "1" "0.220462492350941" "ATP synthesis" "KEGG" "10" "0.00184104864709507" "1" "0.143116831234323" "Fatty acid metabolism" "KEGG" "10" "0.00995064465696293" "1" "0.109552698594567" "Fructose and mannose metabolism" "KEGG" "10" "0.0158457020852050" "1" "0.178524166580147" "Glutathione metabolism" "KEGG" "10" "0.00911551923168371" "1" "0.154748921968032" "Pentose phosphate pathway" "KEGG" "10" "0.00234005011993014" "1" "0.148909024403838" "Tryptophan metabolism" "KEGG" "10" "0.000239731178221605" "2" "0.0183883152905259" "IPP (isopentenyl diphosphate) and DMAPP (dimethylallyl diphosphat) biosynthesis" "LitPath" "10" "0.000731275787414283" "2" "0.00959723000658314" "MEP (methylerythritol P) pathway, plastids" "LitPath" "10" "2.32560278784427e-07" "2" "0.000829955739938585" "calcium ion transport" "TAIR-GO" "9" "1.85458752179211e-11" "1" "0.00101417508307356" "cation transport" "TAIR-GO" "9" "1.38699979801125e-13" "1" "0.00101417508307356" "cytokinin transport" "TAIR-GO" "9" "0" "1" "0" "defense response" "TAIR-GO" "9" "0.0232296608947385" "1" "0.133154099706448" "ethylene biosynthesis" "TAIR-GO" "9" "4.59095154804228e-06" "1" "0.0250599901779767" "acrylonitrile degradation" "AraCyc" "9" "5.3876267190018e-13" "1" "0.00382238260865478" "alanine degradation III" "AraCyc" "9" "5.8144159332421e-12" "1" "0.00194392356989012" "aldoxime degradation" "AraCyc" "9" "5.3876267190018e-13" "1" "0.00382238260865478" "IAA biosynthesis" "AraCyc" "9" "9.93196817550225e-05" "1" "0.0367502385425271" "IAA biosynthesis I" "AraCyc" "9" "4.69482484123625e-06" "1" "0.0210781063801740" "ion channels" "FunCat" "9" "3.68689137347229e-05" "1" "0.112773909917364" "Alanine and aspartate metabolism" "KEGG" "9" "0.00311446836087092" "1" "0.0936975631143806" "Cyanoamino acid metabolism" "KEGG" "9" "9.28843101010787e-05" "1" "0.0643858706344598" "Glycine, serine and threonine metabolism" "KEGG" "9" "0.00681135960496372" "1" "0.120491016233907" "Membrane Transport" "KEGG" "9" "1.05173133581873e-05" "1" "0.0511751549444235" "Other ion-coupled transporters" "KEGG" "9" "2.07349196083197e-07" "1" "0.0162666883605690" "Protein folding and associated processing" "KEGG" "9" "0.000200978236925281" "1" "0.0690195267958924" "ClpP protease complex " "BioPath" "8" "1.53872773039749e-06" "2" "0.00181002631593018" "Early light-inducible proteins" "BioPath" "8" "2.73926477186404e-05" "1" "0.0162961664037352" "Phytic acid biosynthesis" "BioPath" "8" "0.0142506255109017" "1" "0.145421781065452" "abscisic acid mediated signaling" "TAIR-GO" "8" "6.32181251198565e-07" "1" "0.00583556758649356" "carotenoid biosynthesis" "TAIR-GO" "8" "0.000184062947631190" "1" "0.0250599901779767" "chloroplastic endopeptidase Clp complex" "TAIR-GO" "8" "7.45130774268979e-08" "2" "0.00100636520025786" "response to cold" "TAIR-GO" "8" "2.87545284155432e-05" "1" "0.0191883401286688" "response to salt stress" "TAIR-GO" "8" "1.46338182686418e-07" "1" "0.00583556758649356" "lactose degradation IV" "AraCyc" "8" "1.44187032532371e-08" "2" "0.000541183753844726" "phenylalanine degradation I" "AraCyc" "8" "0.00702236472331971" "2" "0.0311252125691027" "sucrose biosynthesis" "AraCyc" "8" "0.00162512562424170" "2" "0.0138117834502466" "lipid, fatty acid and isoprenoid degradation" "FunCat" "8" "0.0296082050458823" "1" "0.169911242972468" "N-Glycan biosynthesis" "KEGG" "8" "3.49018189555984e-05" "1" "0.035366482357765" "STRESS DATA SET" "quantDE" "3.636628" "maxDE" "8.347224" "STRESS DATA SET" "Cell Wall Carbohydrate Metabolism" "BioPath" "10" "0.000617149320661599" "1" "0.122152078647417" "cellulose biosynthesis" "BioPath" "10" "1.17578597337461e-11" "1" "0.00272600443699763" "hemicellulose biosynthesis" "BioPath" "10" "1.61065321454030e-15" "1" "0.000337778386364021" "Glutathione metabolism" "KEGG" "9" "2.16489646381207e-13" "1" "0.00165856558963379" "HORMONE DATA SET" "quantDE" "2.02917" "maxDE" "4.7785627" "HORMONE DATA SET" "Phenylpropanoid Metabolism" "BioPath" "105" "3.01142635356814e-36" "14" "1.64964748759135e-06" "Biosynthesis of Amino Acids and Derivatives" "BioPath" "60" "6.02200494585835e-09" "7" "0.0236182902620943" "Glutathione metabolism" "BioPath" "60" "1.26395065413353e-27" "7" "8.32421267093684e-05" "tryptophan biosynthesis" "TAIR-GO" "58" "2.45547976617676e-64" "8" "3.01135822863092e-11" "tryptophan biosynthesis" "AraCyc" "58" "8.91215548714677e-64" "8" "2.95715012700250e-10" "Shikimate pathway" "LitPath" "58" "6.5609968416152e-37" "8" "6.00301654208294e-07" "Trp biosyntesis" "LitPath" "58" "1.03608162027737e-59" "8" "7.82325741076821e-11" "Aromatic amino acid (Phe, Tyr, Trp) metabolism" "BioPath" "54" "4.54783187240104e-28" "8" "1.51508425530301e-06" "response to pathogenic bacteria" "TAIR-GO" "54" "0" "8" "0" "sulfate assimilation III" "AraCyc" "44" "9.38231098989422e-32" "6" "1.35594272431904e-06" "Phenylalanine, tyrosine and tryptophan biosynthesis" "KEGG" "36" "7.00332873717942e-23" "6" "3.38348647737462e-06" "cysteine biosynthesis I" "AraCyc" "35" "1.25154104493204e-25" "5" "5.6757074703031e-05" "Glucosyltransferases for benzoic acids" "BioPath" "30" "7.96217528900198e-21" "3" "0.000118800112124320" "Intermediary Carbon Metabolism" "BioPath" "30" "0.0423969952083638" "6" "0.0485285645986401" "toxin catabolism" "TAIR-GO" "26" "5.02383523125087e-19" "9" "4.86668183932296e-08" "nitrogen and sulfur metabolism" "FunCat" "26" "2.0214296226143e-24" "3" "8.79720051976364e-05" "Gluconeogenesis from lipids in seeds" "BioPath" "24" "6.17754809612156e-05" "3" "0.0564793806491997" "lipid, fatty acid and isoprenoid degradation" "FunCat" "22" "3.14077079872071e-21" "3" "0.000299167848796089" "Glutathione metabolism" "KEGG" "22" "1.97089153414375e-11" "4" "0.000436061133636321" "Fatty acid metabolism" "KEGG" "20" "1.02126619755227e-09" "2" "0.0155137783273226" "Degradation of storage lipids and straight fatty acids" "AcylLipid" "20" "1.21382290135979e-11" "2" "0.0116088311791302" "Stilbene, coumarine and lignin biosynthesis" "KEGG" "19" "1.82385894309965e-06" "3" "0.068251238861747" "C-compound and carbohydrate utilization " "FunCat" "18" "0" "3" "0" "sulfate assimilation" "TAIR-GO" "16" "3.91733058082305e-14" "2" "0.00070555268358623" "dissimilatory sulfate reduction" "AraCyc" "16" "2.32127419799206e-15" "2" "0.000186865934728823" "Citrate cycle (TCA cycle)" "KEGG" "16" "2.52819216571075e-07" "3" "0.00358327051905204" "Lipid signaling" "AcylLipid" "16" "0.0352653413766676" "3" "0.0689199256508756" "lignin biosynthesis" "AraCyc" "14" "0.000132653635921868" "3" "0.00765697745381774" "amino acid metabolism" "FunCat" "14" "0.00970229020667324" "2" "0.136530242868629" "Cysteine metabolism" "KEGG" "14" "2.09690396617294e-07" "2" "0.00819403304930548" "Glutamate metabolism" "KEGG" "14" "9.82850348774516e-05" "2" "0.0289761058493636" "Glycine, serine and threonine metabolism" "KEGG" "14" "1.47959999574383e-06" "2" "0.0181066731092605" "Pyruvate metabolism" "KEGG" "14" "0.00403491699309497" "2" "0.102180379525176" "jasmonic acid biosynthesis" "TAIR-GO" "12" "6.44766939987735e-06" "2" "0.0101007391148250" "response to wounding" "TAIR-GO" "12" "9.91658419332824e-05" "2" "0.0152488212885478" "jasmonic acid biosynthesis" "AraCyc" "12" "8.6370982562413e-07" "2" "0.00377726307884513" "Benzoate degradation via CoA ligation" "KEGG" "11" "0.0164996050497357" "2" "0.162264732857708" "Cyanoamino acid metabolism" "KEGG" "11" "4.79998592362278e-07" "2" "0.00658779224430792" "Chloroplastic protein turnover" "BioPath" "10" "5.66596359879086e-07" "1" "0.0260928695487027" "ERD1 protease (ClpC-like)" "BioPath" "10" "0" "1" "0" "fatty acid beta oxidation complex" "BioPath" "10" "0.000443533640771898" "1" "0.0796936255484406" "salycilic acid biosynthesis" "BioPath" "10" "8.96301252680388e-10" "1" "0.00264934018728171" "anthranilate synthase complex" "TAIR-GO" "10" "4.6833986178135e-14" "1" "0.000585760109424973" "ATP-dependent proteolysis" "TAIR-GO" "10" "5.90615946690748e-09" "1" "0.0279820401253682" "cell plate formation (sensu Magnoliophyta)" "TAIR-GO" "10" "4.6833986178135e-14" "1" "0.000585760109424973" "cellular response to sulfate starvation" "TAIR-GO" "10" "2.14781090525921e-14" "1" "0.000585760109424973" "fatty acid metabolism" "TAIR-GO" "10" "0.00193646009488415" "1" "0.123116980907728" "lignin biosynthesis" "TAIR-GO" "10" "1.96187378978024e-06" "1" "0.0188947139924535" "long-chain fatty acid metabolism" "TAIR-GO" "10" "1.99672778258541e-05" "1" "0.0630627191877253" "stress response" "FunCat" "10" "0" "1" "0" "tricarboxylic-acid pathway (citrate cycle, Krebs cycle, TCA cycle)" "FunCat" "10" "0.0355076095501153" "3" "0.0358716942388386" "Carbon fixation" "KEGG" "10" "0.0398769277343292" "2" "0.0807018933514305" "Sulfur metabolism" "KEGG" "10" "0.000163367619267781" "1" "0.0456370462339834" "Tryptophan metabolism" "KEGG" "10" "5.36049592420575e-05" "2" "0.0155137783273226" "metabolism of acyl-lipids in mitochondria" "AcylLipid" "10" "0.000175328750304054" "1" "0.0398393454543758" "ethylene biosynthesis" "TAIR-GO" "9" "2.0196822213241e-07" "1" "0.0149270388580619" "acrylonitrile degradation" "AraCyc" "9" "5.61983518307044e-14" "1" "0.00187950140907588" "aldoxime degradation" "AraCyc" "9" "5.61983518307044e-14" "1" "0.00187950140907588" "IAA biosynthesis" "AraCyc" "9" "1.47327228909859e-05" "1" "0.0188306533941802" "IAA biosynthesis I" "AraCyc" "9" "6.16246304465686e-07" "1" "0.0106362107979771" "nitrogen and sulfur utilization " "FunCat" "9" "3.16653919747995e-08" "1" "0.00781927067901476" "Nitrogen metabolism" "KEGG" "9" "0.0101323878218588" "1" "0.0887742951605844" "4-hydroxyproline degradation" "AraCyc" "8" "1.58245488385302e-06" "1" "0.0158756548494582" "alanine biosynthesis II" "AraCyc" "8" "0.000399506911694485" "2" "0.00972825064591256" "arginine degradation IX" "AraCyc" "8" "1.58245488385302e-06" "1" "0.0188306533941802" "proline degradation I" "AraCyc" "8" "0.000327153609253854" "1" "0.0587271869615582" "proline degradation II" "AraCyc" "8" "1.15790065895123e-06" "1" "0.0158756548494582" "Oxidative phosphorylation" "KEGG" "8" "0.0475743000393041" "2" "0.105420475581729" "indole phytoalexin biosynthesis" "TAIR-GO" "7" "0" "1" "0" "L-serine biosynthesis" "TAIR-GO" "7" "4.19012870258256e-10" "1" "0.000585760109424973" "camalexin biosynthesis" "AraCyc" "7" "0" "1" "0" "cysteine biosynthesis II" "AraCyc" "7" "0.000177048706415746" "1" "0.063588255090502" "phosphoglycerate dehydrogenase, cysteine biosynthesis II" "AraCyc" "7" "3.29477565289295e-12" "1" "0.000320701508200473" "phosphoglycerate dehydrogenase, serine biosynthesis" "AraCyc" "7" "3.29477565289295e-12" "1" "0.000320701508200473" "serine biosynthesis" "AraCyc" "7" "3.92653180210095e-07" "1" "0.00635106177401345" "protein modification " "FunCat" "7" "3.89820651618124e-07" "2" "0.000907363003332494" "Ascorbate and aldarate metabolism" "KEGG" "7" "0.00739595797352184" "1" "0.0575310634430882" "Fluorene degradation" "KEGG" "7" "0.000339434040017264" "1" "0.0222448787690672" "gamma-Hexachlorocyclohexane degradation" "KEGG" "7" "0.000897460234578375" "1" "0.0282414634134839" "camalexin biosynthesis" "LitPath" "7" "0" "1" "0" "MUTANT DATA SET" "quantDE" "2.972861" "maxDE" "5.599590305" "MUTANT DATA SET" "Miscellaneous acyl lipid metabolism" "AcylLipid" "18" "0" "3" "0" "Biosynthesis of Amino Acids and Derivatives" "BioPath" "12" "4.91041039337793e-10" "2" "0.000919913656743622" "Glutathione metabolism" "BioPath" "12" "5.45253245401385e-15" "2" "6.62325596885055e-05" "toxin catabolism" "TAIR-GO" "12" "2.57021397097413e-22" "2" "4.43670254417829e-05" "Glutathione metabolism" "KEGG" "12" "7.20954355047716e-23" "2" "1.16835459876673e-06" "biosynthesis of phenylpropanoids" "FunCat" "10" "4.58298399865638e-15" "1" "0.000684099828614893" "biosynthesis of secondary products derived from L-phenylalanine and L-tyrosine" "FunCat" "10" "4.58298399865638e-15" "1" "0.000684099828614893"