"Pathway" "Pathway.source" "V3" "V4" "V5" "V6" "IN TWO DATA SETS" "" "sum.of.scores" "sum.of.genes" "" "" "C-compound and carbohydrate metabolism" "FunCat" "65" "13" "" "" "Intermediary Carbon Metabolism" "BioPath" "56" "9" "" "" "metabolism of acyl-lipids in mitochondria" "AcylLipid" "30" "3" "" "" "lipoic acid metabolism" "TAIR-GO" "20" "2" "" "" "ORGAN DATA SET" "quantDE" "3.19038" "maxDE" "4.2685563" "ORGAN DATA SET" "C-compound and carbohydrate metabolism" "FunCat" "12" "0.00526145287218245" "2" "0.16808735909537" "defense related proteins" "FunCat" "11" "5.84468939403657e-24" "3" "2.10349291992586e-08" "disease, virulence and defense " "FunCat" "11" "3.39391818682824e-19" "3" "7.9866675440952e-07" "Intermediary Carbon Metabolism" "BioPath" "10" "7.52542484028294e-08" "2" "0.00186405623038725" "lipoic acid metabolism" "TAIR-GO" "10" "0" "1" "0" "Ion channels" "KEGG" "10" "9.07928358260614e-11" "5" "2.49267445777196e-07" "Ligand-Receptor Interaction" "KEGG" "10" "1.23214300728386e-10" "5" "3.1860868044876e-07" "Starch and sucrose metabolism" "KEGG" "10" "7.01173328874526e-06" "2" "0.00922093057451542" "metabolism of acyl-lipids in mitochondria" "AcylLipid" "10" "1.99140352892886e-11" "1" "0.00641327878430538" "STRESS DATA SET" "quantDE" "2.99175" "maxDE" "5.211536" "STRESS DATA SET" "Plastidial Isoprenoids (Chlorophylls, Carotenoids, Tocopherols, Plastoquinone, Phylloquinone)" "BioPath" "59" "1.34214129419085e-13" "9" "0.000463058332051848" "C-compound and carbohydrate metabolism" "FunCat" "53" "1.37630913100572e-06" "11" "0.0369272418143158" "Intermediary Carbon Metabolism" "BioPath" "46" "8.21098975631401e-05" "7" "0.174563065519668" "Photosystems " "BioPath" "44" "5.0163277832564e-06" "9" "0.00313220897246292" "biogenesis of chloroplast" "FunCat" "42" "1.35418289699162e-18" "8" "2.00087088073942e-05" "photosynthesis" "FunCat" "40" "3.53304187738575e-23" "9" "9.72453170272688e-08" "mRNA processing in chloroplast" "BioPath" "38" "6.54514578807014e-45" "7" "6.8426707456933e-10" "Chlorophyll biosynthesis and breakdown" "BioPath" "31" "1.91399124944437e-10" "4" "0.00495263522084383" "additional photosystem II components" "BioPath" "28" "2.17964815524444e-08" "6" "0.000298507191822893" "glycolysis and gluconeogenesis" "FunCat" "28" "6.27724305369832e-05" "6" "0.0307600809233316" "chlorophyll biosynthesis" "TAIR-GO" "25" "2.66431978945517e-18" "3" "0.000170608337288578" "Porphyrin and chlorophyll metabolism" "KEGG" "25" "1.66627514421005e-15" "3" "0.00202550343139573" "chlorophyll and phytochromobilin metabolism" "LitPath" "25" "2.46074720419309e-08" "3" "0.0283690977636778" "Transcription (chloroplast)" "BioPath" "24" "4.44952042893408e-22" "3" "4.38672888230164e-05" "transcription initiation" "TAIR-GO" "24" "7.03124354394114e-26" "3" "1.31349216208305e-05" "Glycolysis / Gluconeogenesis" "KEGG" "24" "6.87542200818194e-08" "4" "0.0201454540554722" "Pentose phosphate pathway" "KEGG" "23" "1.27324537915544e-13" "5" "0.000157945803170443" "Fructose and mannose metabolism" "KEGG" "20" "7.3730929494549e-09" "4" "0.00228981670877433" "Glycine, serine and threonine metabolism" "KEGG" "20" "5.32073269723967e-11" "4" "0.000739336064197969" "metabolism of acyl-lipids in mitochondria" "AcylLipid" "20" "3.04605424890066e-15" "2" "0.00300628222056306" "chlorophyll biosynthesis" "LitPath" "19" "1.71234562301672e-13" "2" "0.00320747077312842" "biosynthesis of proto- and siroheme" "AraCyc" "18" "2.04296603690356e-09" "3" "0.0102113511054104" "psbP family of thylakoid proteins" "BioPath" "16" "8.50744553701047e-21" "4" "2.63515128141749e-07" "response to light" "TAIR-GO" "16" "2.43519243611441e-07" "2" "0.0453600723635139" "secondary metabolism" "FunCat" "16" "4.56149834445636e-05" "3" "0.0689525535352504" "Translation factors" "KEGG" "16" "6.59335448010987e-05" "5" "0.00793227974842225" "Carotenoid and abscisic acid metabolism" "LitPath" "16" "1.01191213551444e-06" "3" "0.00561664480921932" "Calvin cycle" "AraCyc" "15" "5.56366137677043e-08" "5" "0.000116617225721113" "transport " "FunCat" "15" "3.44348343081746e-25" "3" "0" "Pathway for nuclear-encoded, thylakoid-localized proteins" "BioPath" "14" "6.46202395811439e-07" "2" "0.0089765117134346" "pentose-phosphate shunt" "TAIR-GO" "14" "4.59819533435e-11" "2" "0.00187799602981167" "Pyruvate metabolism" "KEGG" "14" "0.00592647360509902" "2" "0.183399867118219" "Chloroplastic protein import via envelope membrane" "BioPath" "13" "2.15576041845493e-06" "2" "0.0261711319165516" "oxidative branch of the pentose phosphate pathway" "AraCyc" "13" "1.98513093892885e-13" "3" "0.000112802933073703" "Carbon fixation" "KEGG" "13" "0.00442095430191763" "4" "0.0101884263392779" "Carotenoid biosynthesis" "BioPath" "12" "9.03421516072324e-06" "2" "0.00544643557245623" "acetate fermentation" "AraCyc" "12" "0.00101494665070814" "3" "0.0537078909354583" "chlorophyll biosynthesis" "AraCyc" "12" "0.000591071886326832" "2" "0.095195461553652" "fructose degradation (anaerobic)" "AraCyc" "12" "0.000591071886326832" "3" "0.0424725047055269" "glycolysis IV" "AraCyc" "12" "0.000634029752423156" "3" "0.0446013139885214" "mannitol degradation" "AraCyc" "12" "9.07810569305768e-09" "3" "0.00164596272209693" "sorbitol degradation" "AraCyc" "12" "1.49639124054695e-08" "3" "0.00191434818665872" "sorbitol fermentation" "AraCyc" "12" "0.00108245918970906" "3" "0.0490365223554758" "tRNA charging pathway" "AraCyc" "12" "3.70134770617136e-07" "5" "0.000389892398055217" "Aminoacyl-tRNA biosynthesis" "KEGG" "12" "2.05215844162042e-07" "5" "0.000157945803170443" "carotenid biosynthesis" "LitPath" "12" "1.64108169266417e-06" "2" "0.00599762910280450" "pentose-phosphate pathway " "FunCat" "11" "1.08920884859599e-05" "2" "0.0160592236848409" "Chlorophyll a/b binding proteins" "BioPath" "10" "0.010790916691178" "1" "0.139138948960040" "Delta-pH pathway" "BioPath" "10" "5.6059227575236e-11" "1" "0.00349157292433781" "light harvesting complex" "BioPath" "10" "2.52705827677253e-07" "1" "0.0163046457226412" "Regulatory enzymes" "BioPath" "10" "1.03032954835035e-09" "1" "0.00349157292433781" "carotene biosynthesis" "TAIR-GO" "10" "3.54772244883477e-12" "1" "0.00138715092281817" "chloroplast thylakoid membrane protein import" "TAIR-GO" "10" "1.19857653000282e-10" "1" "0.00273568596571324" "glucose metabolism" "TAIR-GO" "10" "5.47768405478582e-10" "1" "0.00449610128800199" "lipoic acid metabolism" "TAIR-GO" "10" "0" "1" "0" "pentose-phosphate shunt, oxidative branch" "TAIR-GO" "10" "5.47768405478582e-10" "1" "0.00449610128800199" "RNA binding" "TAIR-GO" "10" "0" "1" "0" "RNA processing" "TAIR-GO" "10" "0" "1" "0" "carotenoid biosynthesis" "AraCyc" "10" "4.18479809694355e-07" "1" "0.0176370073861311" "Biosynthesis of steroids" "KEGG" "10" "0.0479596491092481" "1" "0.243728902464596" "Citrate cycle (TCA cycle)" "KEGG" "10" "0.00203705623846746" "1" "0.205611934624346" "Glutathione metabolism" "KEGG" "10" "0.00359235755227324" "1" "0.213188519339928" "phytochromobilin biosynthesis" "LitPath" "10" "1.19648343783998e-06" "1" "0.0244178709784139" "Toc apparatus" "BioPath" "9" "3.33591925665822e-05" "1" "0.05341399420178" "protein-chloroplast targeting" "TAIR-GO" "9" "3.23141659446372e-09" "1" "0.00449610128800199" "chloroplast transport " "FunCat" "9" "3.56848381513514e-07" "1" "0.0262344525309203" "protein targeting, sorting and translocation" "FunCat" "9" "6.19294242279581e-08" "1" "0.0213436413015367" "transport routes " "FunCat" "9" "2.18448479347235e-05" "1" "0.0780614217939693" "Early light-inducible proteins" "BioPath" "8" "2.57286574126392e-05" "1" "0.0223151373606513" "Translation (chloroplast)" "BioPath" "8" "8.63540367729526e-06" "2" "0.00127841662761616" "response to high light intensity" "TAIR-GO" "8" "1.31350321182342e-09" "1" "0.00138715092281817" "cysteine biosynthesis I" "AraCyc" "8" "0.00409368785975448" "2" "0.0476819671619888" "cysteine biosynthesis II" "AraCyc" "8" "7.94989515300118e-06" "2" "0.0117394651234849" "Ubiquinone biosynthesis" "KEGG" "8" "7.55688740707446e-08" "3" "4.89227247396535e-05" "phylloquinone biosynthesis" "LitPath" "8" "7.98160340680556e-05" "3" "0.00561664480921932" "plastochinone and phylloquinone biosynthesis" "LitPath" "8" "2.42366080486404e-07" "3" "0.000398588660605021" "fatty acid desaturation" "TAIR-GO" "7" "2.28378286700483e-08" "1" "0.00138715092281817" "one-carbon compound metabolism" "TAIR-GO" "7" "4.52333095672381e-08" "1" "0.00273568596571324" "photoinhibition" "TAIR-GO" "7" "4.52333095672381e-08" "1" "0.00138715092281817" "carbon monoxide dehydrogenase pathway" "AraCyc" "7" "4.56872000602242e-05" "3" "0.00253930931045965" "folate biosynthesis" "AraCyc" "7" "6.25995312311001e-06" "1" "0.0337796776746047" "glycosylglyceride desaturation pathway" "AraCyc" "7" "1.50381540070247e-07" "1" "0.00255298586627045" "assimilation of ammonia, metabolism of the glutamate group" "FunCat" "7" "0.0199403033706630" "1" "0.101975844177322" "Synthesis of membrane lipids in plastids" "AcylLipid" "7" "0.00612908300020573" "1" "0.0247107909278623" "HORMONE DATA SET" "quantDE" "3.578716" "maxDE" "5.353895" "HORMONE DATA SET" "MUTANT DATA SET" "quantDE" "3.455213" "maxDE" "5.177565108" "MUTANT DATA SET"