"Pathway" "Pathway.source" "V3" "V4" "V5" "V6" "IN THREE DATA SETS" "" "sum.of.scores" "sum.of.genes" "" "" "monoterpene biosynthesis" "LitPath" "46" "5" "" "" "monoterpene biosynthesis" "LitPath" "46" "5" "" "" "transport " "FunCat" "39" "8" "" "" "jasmonic acid biosynthesis" "AraCyc" "38" "5" "" "" "ORGAN DATA SET" "quantDE" "2.23757" "maxDE" "4.2695236" "ORGAN DATA SET" "Stilbene, coumarine and lignin biosynthesis" "KEGG" "46" "1.51473671636046e-29" "17" "2.34579210108271e-12" "Phenylalanine metabolism" "KEGG" "45" "8.60726911422793e-32" "17" "2.21459389262649e-13" "Methane metabolism" "KEGG" "36" "2.78784861010529e-27" "16" "8.70470979059738e-13" "Prostaglandin and leukotriene metabolism" "KEGG" "36" "7.71625070455785e-35" "16" "1.67850922835086e-14" "mono-/sesqui-/di-terpene biosynthesis" "LitPath" "27" "3.86540626331017e-13" "4" "0.00663220440512542" "terpenoid metabolism" "LitPath" "27" "4.47116529249263e-13" "4" "0.00763495903316258" "Phenylpropanoid Metabolism" "BioPath" "22" "5.04754643875869e-07" "6" "0.0024303764284269" "Miscellaneous acyl lipid metabolism" "AcylLipid" "22" "0.000108104073026538" "11" "6.50090184910718e-05" "triterpene, sterol, and brassinosteroid metabolism" "LitPath" "21" "0.00524912852289607" "6" "0.0146329024965347" "monoterpenoid biosynthesis" "TAIR-GO" "19" "7.70652062812513e-32" "2" "3.59902478849026e-06" "detoxification" "FunCat" "19" "0" "6" "0" "monoterpene biosynthesis" "LitPath" "19" "3.06008274126618e-18" "2" "0.000596188813794487" "Lipid signaling" "AcylLipid" "18" "0.0191328724113303" "3" "0.595831966119489" "cation transport (Na, K, Ca , NH4, etc.) " "FunCat" "17" "6.21808459549318e-29" "2" "4.38701799510712e-06" "heavy metal ion transport (Cu, Fe, etc.)" "FunCat" "17" "0" "2" "0" "ion transport " "FunCat" "17" "0" "2" "0" "transport " "FunCat" "17" "1.98162761726216e-33" "2" "4.38701799510712e-06" "transport facilitation" "FunCat" "17" "0" "2" "4.38701799510712e-06" "transported compounds (substrates)" "FunCat" "17" "0" "2" "0" "isoprenoid biosynthesis " "FunCat" "14" "0.000386529718147195" "3" "0.0178607157228722" "lipid, fatty acid and isoprenoid biosynthesis " "FunCat" "14" "9.0846777239806e-05" "3" "0.0110508525308530" "Biosynthesis of steroids" "KEGG" "13" "0.00212246806609299" "2" "0.0845393352757627" "triterpene biosynthesis" "LitPath" "13" "1.71636684319377e-08" "2" "0.00621833141158065" "Fatty acid elongation and wax and cutin metabolism" "AcylLipid" "12" "0.00288836049435654" "2" "0.276095620532068" "biosynthesis of secondary products derived from primary amino acids" "FunCat" "11" "1.82598372969714e-12" "3" "3.09522884296406e-05" "detoxification involving cytochrome P450 " "FunCat" "11" "1.23453529562737e-14" "2" "0.000867514788867372" "Arginine and proline metabolism" "KEGG" "11" "0.000274658364033259" "2" "0.0681163283651567" "Glucosyltransferases for benzoic acids" "BioPath" "10" "2.71773822484067e-09" "1" "0.00893231744830345" "pectin metabolism" "BioPath" "10" "0.000307893933626081" "4" "0.0238517301985789" "Transporters required for plastid development" "BioPath" "10" "0" "1" "0" "cell death" "TAIR-GO" "10" "2.63400222177975e-14" "1" "0.000584769985055494" "fatty acid alpha-oxidation" "TAIR-GO" "10" "0" "1" "0" "fatty acid metabolism" "TAIR-GO" "10" "6.00493886919369e-07" "1" "0.0257184934574494" "iron ion homeostasis" "TAIR-GO" "10" "0" "1" "0" "jasmonic acid biosynthesis" "AraCyc" "10" "1.27301345470706e-08" "1" "0.0141855996933415" "lipoxygenase pathway" "AraCyc" "10" "1.31362971554414e-10" "1" "0.00636200788721736" "secondary metabolism" "FunCat" "10" "0.00219702926199489" "3" "0.0168943604271689" "Ascorbate and aldarate metabolism" "KEGG" "10" "9.80132317961046e-05" "1" "0.108448891365273" "Fluorene degradation" "KEGG" "10" "9.3970514255502e-07" "1" "0.0438316372937749" "gamma-Hexachlorocyclohexane degradation" "KEGG" "10" "3.99801592072417e-06" "1" "0.0551499961428837" "fatty acid modulation" "LitPath" "10" "2.67435219856823e-12" "1" "0.00164218593194052" "cell wall biosynthesis (sensu Magnoliophyta)" "TAIR-GO" "9" "4.32604056802363e-08" "1" "0.0136877251090887" "secondary cell wall biosynthesis (sensu Magnoliophyta)" "TAIR-GO" "9" "5.14660475235107e-15" "1" "0.000584769985055494" "monoterpene biosynthesis" "AraCyc" "9" "4.38067716895795e-14" "1" "0.000306645590375351" "plant monoterpene biosynthesis" "AraCyc" "9" "2.1818933555194e-16" "1" "0.000102885460377304" "biosynthesis of amines" "FunCat" "9" "5.9132009746833e-15" "1" "0.000273223480735272" "Alkaloid biosynthesis I" "KEGG" "9" "0.000102741614930351" "1" "0.0871648742956106" "Alkaloid biosynthesis II" "KEGG" "9" "3.85624437069092e-08" "1" "0.0129474973047953" "beta-Alanine metabolism" "KEGG" "9" "2.36292829828486e-05" "1" "0.0737834606022757" "Glycine, serine and threonine metabolism" "KEGG" "9" "0.0016752161052332" "1" "0.195016988271565" "Histidine metabolism" "KEGG" "9" "1.81895941410239e-06" "1" "0.0673685163400112" "Tryptophan metabolism" "KEGG" "9" "0.000203248344549145" "1" "0.178580886858540" "Tyrosine metabolism" "KEGG" "9" "0.00359304712856678" "1" "0.228398911312322" "Flavonoid and anthocyanin metabolism" "BioPath" "8" "1.58236213893754e-05" "4" "0.000306377085732043" "toxin catabolism" "TAIR-GO" "8" "2.70717155239593e-06" "4" "6.05927110194128e-05" "storage protein" "FunCat" "8" "7.61075348673277e-12" "2" "4.28407663960667e-05" "brassinosteroid modulation" "LitPath" "8" "3.54402942253373e-07" "4" "8.47043389687092e-05" "pentacyclic triterpenoid biosynthesis" "TAIR-GO" "7" "8.88101542100275e-08" "1" "0.00266283021341320" "STRESS DATA SET" "quantDE" "0.6448682" "maxDE" "3.331473" "STRESS DATA SET" "HORMONE DATA SET" "quantDE" "1.415979" "maxDE" "2.678391" "HORMONE DATA SET" "transport " "FunCat" "12" "1.3058360515372e-27" "2" "5.67731740543276e-08" "transport facilitation" "FunCat" "12" "0" "2" "5.67731740543276e-08" "transported compounds (substrates)" "FunCat" "12" "0" "2" "0" "Transporters required for plastid development" "BioPath" "10" "0" "1" "0" "iron ion homeostasis" "TAIR-GO" "10" "0" "1" "0" "cation transport (Na, K, Ca , NH4, etc.) " "FunCat" "10" "1.30799193484508e-20" "1" "4.81023620169393e-05" "heavy metal ion transport (Cu, Fe, etc.)" "FunCat" "10" "1.22360266792555e-22" "1" "1.60719694550160e-05" "ion transport " "FunCat" "10" "0" "1" "0" "Leaf Glycerolipid Biosynthesis" "BioPath" "7" "0.000736923041705073" "1" "0.0375229990414574" "Leaf Glycerolipid Biosynthesis in Plastid" "BioPath" "7" "2.89598015169875e-07" "1" "0.00435465146522851" "fatty acid desaturation" "TAIR-GO" "7" "3.40326760342194e-15" "1" "2.33363123655411e-05" "photoinhibition" "TAIR-GO" "7" "6.95545119223062e-15" "1" "2.33363123655411e-05" "glycosylglyceride desaturation pathway" "AraCyc" "7" "0" "1" "0" "Synthesis of membrane lipids in plastids" "AcylLipid" "7" "3.99643846682324e-09" "1" "0.00131801920542271" "MUTANT DATA SET" "quantDE" "2.116681" "maxDE" "6.997659441" "MUTANT DATA SET" "Cell Wall Carbohydrate Metabolism" "BioPath" "125.5" "1.63651921386579e-18" "39" "4.21647829748865e-06" "pectin metabolism" "BioPath" "66.5" "1.80938092235900e-23" "29" "6.8699058394417e-10" "triterpene, sterol, and brassinosteroid metabolism" "LitPath" "57" "1.07039131463678e-08" "12" "0.00601275948375439" "Starch and sucrose metabolism" "KEGG" "41" "5.57683624906168e-11" "7" "0.00822462876121046" "Biosynthesis of steroids" "KEGG" "37" "4.32531390973831e-11" "7" "0.000331342728547337" "intracellular signalling" "FunCat" "35" "4.00673812638509e-12" "7" "0.00725727163103669" "Lipid signaling" "AcylLipid" "31" "0.00194434477431919" "6" "0.251558421487355" "Pyruvate metabolism" "KEGG" "29" "1.73630624284958e-05" "6" "0.0211630490509751" "nucleotide metabolism" "FunCat" "28" "0" "6" "0" "biogenesis of cell wall" "FunCat" "26" "0.000258429182865655" "10" "0.000400179664443244" "lipases pathway" "AraCyc" "25" "2.47773969688001e-11" "4" "0.005605047974985" "mono-/sesqui-/di-terpene biosynthesis" "LitPath" "25" "0.000179656521068749" "5" "0.0618514736159645" "terpenoid metabolism" "LitPath" "25" "0.000197249331251334" "5" "0.0706196913947941" "triterpene biosynthesis" "LitPath" "25" "1.30552018693298e-13" "4" "0.00111104800089681" "Nucleotide Metabolism" "KEGG" "24" "0.000207800517046827" "5" "0.074688226502187" "Pyrimidine metabolism" "KEGG" "24" "5.07400473905203e-10" "5" "0.00410046239801787" "Leaf Glycerolipid Biosynthesis in Plastid" "BioPath" "22" "0.0248870486827812" "3" "0.439298507983355" "pentacyclic triterpenoid biosynthesis" "TAIR-GO" "21" "1.07918522687075e-18" "3" "3.30502499970290e-05" "cellular response to phosphate starvation" "TAIR-GO" "20" "3.00816929896545e-18" "2" "0.00100011176592265" "lipid biosynthesis" "TAIR-GO" "20" "3.26401239618211e-20" "2" "0.000189437379226439" "(deoxy)ribose phosphate degradation" "AraCyc" "20" "1.28374608703218e-15" "4" "6.87937589042457e-05" "glycosylglyceride biosynthesis" "AraCyc" "20" "7.5119559065638e-14" "2" "0.00284614241411983" "energy" "FunCat" "20" "0" "3" "0" "lipid, fatty acid and isoprenoid biosynthesis " "FunCat" "20" "0.0445893841817496" "4" "0.143830228627603" "lipid, fatty acid and isoprenoid metabolism" "FunCat" "20" "0.00613852428727138" "2" "0.367269018299326" "metabolism of energy reserves (e.g. glycogen, trehalose)" "FunCat" "20" "0" "3" "0" "pyrimidine nucleotide metabolism" "FunCat" "20" "1.71859767004238e-11" "4" "0.00140264881779300" "Glycolysis / Gluconeogenesis" "KEGG" "20" "0.0199741302810516" "5" "0.0785142634668382" "Synthesis of membrane lipids in plastids" "AcylLipid" "20" "1.63834865946297e-07" "2" "0.0382353027653712" "starch metabolism" "BioPath" "19" "1.77323527906108e-05" "2" "0.260573453941539" "Transcription" "KEGG" "19" "0.00171265887197828" "5" "0.0785142634668382" "response to light" "TAIR-GO" "18" "7.75587434471545e-07" "3" "0.0172374232008014" "abscisic acid biosynthesis" "AraCyc" "18" "5.6794364630697e-20" "3" "2.01610909104488e-05" "chlorophyll biosynthesis" "AraCyc" "18" "0.0087424252494713" "6" "0.00855518507768595" "C-compound, carbohydrate catabolism" "FunCat" "18" "6.77427434701424e-05" "5" "0.0188215186174368" "abscisic acid biosynthesis" "LitPath" "18" "2.45600761635175e-10" "3" "0.00377540757199217" "Carotenoid and abscisic acid metabolism" "LitPath" "18" "0.00961296110049485" "3" "0.126655277764816" "transcription" "FunCat" "17" "2.65178216915313e-11" "4" "0.000516365302790164" "Benzoate degradation via CoA ligation" "KEGG" "17" "0.0311318575355793" "5" "0.132709303175452" "Nicotinate and nicotinamide metabolism" "KEGG" "17" "0.00864194703465383" "5" "0.0992693576103032" "glycolysis IV" "AraCyc" "16" "0.0351346776369386" "5" "0.0695630585892146" "mixed acid fermentation" "AraCyc" "16" "0.000257104543572020" "4" "0.0198766737479311" "Phenylalanine, tyrosine and tryptophan biosynthesis" "KEGG" "16" "0.00631238490104236" "2" "0.234942486292053" "degradation " "FunCat" "15" "9.81322743413626e-05" "3" "0.0446949154788543" "RNA synthesis " "FunCat" "15" "0.000133380147894103" "3" "0.0503917663139009" "Flavonoid and anthocyanin metabolism" "BioPath" "14" "0.00924232858147027" "5" "0.10337191852592" "jasmonic acid biosynthesis" "TAIR-GO" "14" "5.04036696170397e-06" "2" "0.0139620277658133" "alanine biosynthesis II" "AraCyc" "14" "3.59469039319506e-05" "3" "0.0249287633480780" "biosynthesis of proto- and siroheme" "AraCyc" "14" "0.015626074759398" "4" "0.0368856989315545" "glycerol degradation II" "AraCyc" "14" "0.0127151886802962" "4" "0.0520406187608991" "jasmonic acid biosynthesis" "AraCyc" "14" "8.82220309420155e-05" "2" "0.0458867440069556" "non-phosphorylated glucose degradation" "AraCyc" "14" "8.07029876300749e-06" "4" "0.0137604660329175" "phenylalanine biosynthesis II" "AraCyc" "14" "3.68370351063323e-06" "3" "0.0160267728511814" "sucrose degradation III" "AraCyc" "14" "6.11801475666432e-07" "3" "0.00493655553698294" "trans-zeatin biosynthesis" "AraCyc" "14" "2.61725830405564e-11" "3" "0.000253169120984163" "Glutathione metabolism" "KEGG" "14" "0.00958413832454369" "3" "0.079439540502978" "Ligand-Receptor Interaction" "KEGG" "14" "5.47976595999577e-05" "7" "0.00068505957894951" "peptidoglycan biosynthesis" "AraCyc" "13" "1.99324586432314e-11" "3" "0.000253169120984163" "cell growth / morphogenesis " "FunCat" "13" "4.64824511426167e-12" "2" "0.00132389203957165" "lipid, fatty acid and isoprenoid degradation" "FunCat" "13" "0.00285725243611015" "2" "0.166987018536466" "second messenger mediated signal transduction" "FunCat" "13" "1.83006450871992e-14" "2" "0.000550872515829883" "abscisic acid biosynthesis" "TAIR-GO" "12" "5.84602468094146e-08" "2" "0.00206069046729201" "gibberellin biosynthesis" "AraCyc" "12" "2.59600999567965e-05" "3" "0.00154972147686101" "sucrose biosynthesis" "AraCyc" "12" "0.000379256722933522" "2" "0.0600117499762647" "trehalose biosynthesis III" "AraCyc" "12" "0.00397333929476513" "3" "0.0554586364644502" "sugar, glucoside, polyol and carboxylate catabolism " "FunCat" "12" "4.59723052180026e-06" "3" "0.00639617578729702" "Ion channels" "KEGG" "12" "0.000524320093882193" "6" "0.00260286753180278" "Terpenoid biosynthesis" "KEGG" "12" "0.000641621889093179" "3" "0.00943082133745776" "dTDP-rhamnose biosynthesis" "AraCyc" "11" "0.0391279474756057" "2" "0.31204209651293" "starch biosynthesis" "AraCyc" "11" "0" "2" "0" "UDP-N-acetylglucosamine biosynthesis" "AraCyc" "11" "1.8237306431217e-07" "2" "0.00284614241411983" "C-compound and carbohydrate utilization " "FunCat" "11" "8.42350983043016e-15" "2" "0" "sucrose metabolism" "BioPath" "10" "0.00835316557266302" "1" "0.311443488400726" "trehalose metabolism" "BioPath" "10" "1.32078710544186e-06" "2" "0.0375323893668583" "anther dehiscence" "TAIR-GO" "10" "0" "1" "0" "aromatic amino acid family biosynthesis" "TAIR-GO" "10" "0.000222061459768013" "1" "0.054717041357941" "aromatic amino acid family biosynthesis, shikimate pathway" "TAIR-GO" "10" "3.5393428520818e-05" "1" "0.0410961773022252" "galactolipid biosynthesis" "TAIR-GO" "10" "8.51879912995414e-08" "1" "0.00704459141037672" "glucosinolate biosynthesis" "TAIR-GO" "10" "1.13987856204727e-05" "1" "0.0187047764420994" "glycolipid biosynthesis" "TAIR-GO" "10" "3.69312096085482e-09" "1" "0.0043025297979166" "oxygen binding" "TAIR-GO" "10" "8.05452329025307e-13" "1" "0.000743105245201363" "pollen maturation" "TAIR-GO" "10" "0" "1" "0" "porphyrin biosynthesis" "TAIR-GO" "10" "3.5393428520818e-05" "2" "0.00463145200433821" "response to hypoxia" "TAIR-GO" "10" "2.31336986696473e-14" "1" "0.000743105245201363" "starch catabolism" "TAIR-GO" "10" "6.018697974174e-12" "1" "0.00218990576849499" "sulfolipid biosynthesis" "TAIR-GO" "10" "1.60380103368812e-13" "1" "0.000743105245201363" "glucosinolate biosynthesis from phenylalanine" "AraCyc" "10" "2.60507461734723e-07" "1" "0.0116665899008362" "glyoxylate cycle" "AraCyc" "10" "0.0244549727477091" "2" "0.0844945869657729" "methylglyoxal degradation" "AraCyc" "10" "5.389791713685e-06" "2" "0.0233809858019632" "starch degradation" "AraCyc" "10" "0.000435328964288265" "1" "0.147251725849837" "threonine degradation" "AraCyc" "10" "7.28403140750324e-05" "2" "0.067749396866775" "triacylglycerol degradation" "AraCyc" "10" "0.00969725762678862" "5" "0.0319783426341289" "tyrosine biosynthesis I" "AraCyc" "10" "2.94075115287050e-06" "1" "0.0602293339042445" "biosynthesis of derivatives of dehydroquinic acid, shikimic acid and chorismic acid" "FunCat" "10" "1.56650154555798e-13" "1" "0.0154004821324001" "transport " "FunCat" "10" "5.15110705562210e-11" "4" "0" "Glyoxylate and dicarboxylate metabolism" "KEGG" "10" "0.013263846195664" "2" "0.093866706226446" "RNA polymerase" "KEGG" "10" "0.0299131357409186" "3" "0.0687965665244622" "brassinosteroid biosynthesis" "TAIR-GO" "9" "0.000677391166050956" "1" "0.0410961773022252" "brassinosteroid metabolism" "TAIR-GO" "9" "1.40351646967778e-14" "1" "0.000743105245201363" "methylglyoxal catabolism" "TAIR-GO" "9" "8.02427258341657e-12" "1" "0.000743105245201363" "monoterpenoid biosynthesis" "TAIR-GO" "9" "6.94964899869801e-08" "1" "0.0043025297979166" "mRNA processing" "TAIR-GO" "9" "0" "1" "0" "RNA processing" "TAIR-GO" "9" "0" "1" "0" "steroid biosynthesis" "TAIR-GO" "9" "0.000677391166050956" "1" "0.0410961773022252" "brassinosteroid biosynthesis I" "AraCyc" "9" "0.00726894267114296" "1" "0.230798811620693" "monoterpene biosynthesis" "AraCyc" "9" "8.38173893732691e-08" "1" "0.00601343773208541" "plant monoterpene biosynthesis" "AraCyc" "9" "5.52739311660922e-10" "1" "0.00206661758277386" "Basal transcription factors" "KEGG" "9" "0.0038569850342072" "2" "0.154674128128969" "brassinosteroid degradation" "LitPath" "9" "1.33382309716882e-10" "1" "0.00875832497034942" "monoterpene biosynthesis" "LitPath" "9" "0.00163412051940708" "1" "0.0726013508710186" "Chloroplastic protein import via envelope membrane" "BioPath" "8" "0.0104999237585661" "2" "0.0983029756957132" "Toc apparatus" "BioPath" "8" "0.000646368600482231" "2" "0.0236200121802291" "proanthocyanidin biosynthesis" "TAIR-GO" "8" "1.71117214926014e-08" "1" "0.00218990576849499" "C-compound, carbohydrate anabolism" "FunCat" "8" "0.0189594658425753" "2" "0.074641986060415" "general transcription activities" "FunCat" "8" "0.000940765402101451" "2" "0.0339395459538594" "DNA polymerase" "KEGG" "8" "2.03111184700626e-05" "2" "0.0224823057868232" "Reductive carboxylate cycle (CO2 fixation)" "KEGG" "8" "0.0116166043156563" "2" "0.0408614312172886" "calcium-mediated signaling" "TAIR-GO" "7" "1.05673832389449e-08" "1" "0.00218990576849499" "cytokinin biosynthesis" "TAIR-GO" "7" "1.39135077096303e-06" "1" "0.0043025297979166" "histone acetylation" "TAIR-GO" "7" "0" "1" "0" "polysaccharide biosynthesis" "TAIR-GO" "7" "0" "1" "0" "salicylic acid biosynthesis" "TAIR-GO" "7" "6.01468473709912e-09" "1" "0.000743105245201363" "transcription factor TFIID complex" "TAIR-GO" "7" "0" "1" "0" "mannosyl-chito-dolichol biosynthesis" "AraCyc" "7" "5.31781339424037e-08" "1" "0.00601343773208541" "cytoskeleton" "FunCat" "7" "0" "1" "0" "directional cell growth (morphogenesis)" "FunCat" "7" "3.22195353423960e-09" "1" "0.007975677324115" "protein modification " "FunCat" "7" "0.00657410611106509" "1" "0.204538682934421" "RNA modification " "FunCat" "7" "5.17064091594805e-08" "1" "0.00275407620174030" "tRNA modification " "FunCat" "7" "0" "1" "0" "tRNA synthesis " "FunCat" "7" "0.000135812328831600" "1" "0.048553030460682" "N-Glycan biosynthesis" "KEGG" "7" "0.00413233699909213" "1" "0.154357702866094"