Co-expression results for Arabidopsis metabolic pathways

This page gives links to co-expression results reported in the paper 'Transcriptional Coordination of the Metabolic Network in Arabidopsis thaliana.' The table below lists metabolic pathways analyzed in the paper, with links to a mirror of AraCyc hosted at UAB. To download compressed, tab-delimited spreadsheets with regression results for a pathway, right-click (Windows, Unix) or control-click (Mac) the 'ATH1 regression results' links. Note that if you open these files in Excel, very small p values will be incorrectly displayed as 0. The final column in the table lists probe sets (ATH1 array from Affymetrix) and target genes for each pathway. Only probe sets annotated as having a single target gene are listed. Probe set ids link to probe set pages at the Affymetrix NetAffx Web site; viewing these links will require registration. Arabidopsis gene ids (AGI codes) link to the Arabidopsis Information Resources (TAIR).

	pathway	ATH1 and AGI/gene id codes
1	ARGSYNBSUB-PWY arginine biosynthesis I within pathway co-expression p value: <0.0001 ATH1 regression results PLC results: 1e-80 p cutoff PLC results: 1e-120 p cutoff	253630_at : AT4G30490 251639_at : AT3G57560 250403_at : AT5G10920 262317_at : AT2G48140 261122_at : AT1G75330 266704_at : AT2G19940 253057_at : AT4G37670 260286_at : AT1G80600 254134_at : AT4G24830 257680_at : AT3G20330 247378_at : AT5G63120 265965_at : AT2G37500
2	DAPLYSINESYN-PWY lysine biosynthesis I within pathway co-expression p value: <0.0001 ATH1 regression results PLC results: 1e-80 p cutoff PLC results: 1e-120 p cutoff	250291_at : AT5G13280 253033_at : AT4G38220 251392_at : AT3G60880 248879_at : AT5G46180 251948_at : AT3G53580 266704_at : AT2G19940 262841_at : AT1G14810 263696_at : AT1G31230 245145_at : AT2G45440 254535_at : AT4G19710 253197_at : AT4G35250 248402_at : AT5G52100
3	TRNA-CHARGING-PWY tRNA charging pathway within pathway co-expression p value: <0.0001 ATH1 regression results PLC results: 1e-80 p cutoff PLC results: 1e-120 p cutoff	248339_at : AT5G52520 245631_at : AT1G25350 246780_at : AT5G27470 253561_at : AT4G31180 259069_at : AT3G11710 245964_at : AT5G19720 265013_at : AT1G24460 256365_at : AT1G66530 262292_at : AT1G27595 245413_at : AT4G17300 249497_at : AT5G39220 253295_at : AT4G33760 246509_at : AT5G16715 258820_at : AT3G04600 254004_at : AT4G26300 256000_at : AT1G29880 262468_at : AT1G50200 252516_at : AT3G46100 258475_at : AT3G02660 252654_at : AT3G44740 255328_at : AT4G04350 258601_at : AT3G02760 248634_at : AT5G49030 251442_at : AT3G59980 259022_at : AT3G07420 252404_at : AT3G48110 255990_at : AT1G29870 251264_at : AT3G62120 249537_at : AT5G38830 253935_at : AT4G26870 255020_at : AT4G10320 251573_at : AT3G58140 254734_at : AT4G13780 251520_at : AT3G59410 259920_at : AT1G72550 264705_at : AT1G09620 251807_at : AT3G55400 264350_at : AT1G11870 260780_at : AT1G14610 255893_at : AT1G17960 256963_at : AT3G13490 246801_at : AT5G26830 247319_at : AT5G64050 251728_at : AT3G56300
4	GLUCONEO-PWY gluconeogenesis within pathway co-expression p value: <0.0001 ATH1 regression results PLC results: 1e-80 p cutoff PLC results: 1e-120 p cutoff	250917_at : AT5G03690 250498_at : AT5G09660 257124_at : AT3G20040 257699_at : AT3G12780 258570_at : AT3G04530 260032_at : AT1G68750 259361_at : AT1G13440 262784_at : AT1G10760 252929_at : AT4G38970 258679_at : AT3G08590 266457_at : AT2G22780 263213_at : AT1G30560 263761_at : AT2G21330 253966_at : AT4G26520 261197_at : AT1G12900 265735_at : AT2G01140 263921_at : AT2G36460 263663_at : AT1G04410 258588_s_at : AT3G04120 262944_at : AT1G79550 247970_at : AT5G56720 257217_at : AT3G14940 254107_at : AT4G25220 260590_at : AT1G53310 266266_at : AT2G29560 261206_at : AT1G12800 266534_at : AT2G16940 252407_at : AT3G47520 256854_at : AT3G15180 261674_at : AT1G18270 253971_at : AT4G26530 257213_at : AT3G15020 261355_at : AT1G79750 264668_at : AT1G09780 256228_at : AT1G56190 260392_at : AT1G74030 251352_at : AT3G61070 253041_at : AT4G37870 257807_at : AT3G26650 249147_at : AT5G43330 252022_at : AT3G52930 263924_at : AT2G36530 259411_at : AT1G13410 251885_at : AT3G54050 255033_at : AT4G09520 245528_at : AT4G15530 249163_at : AT5G42740 260615_at : AT1G53240 262195_at : AT1G78040 254141_at : AT4G24620 263562_at : AT2G15420 247813_at : AT5G58330 251930_at : AT3G53780 259625_at : AT1G42970 260837_at : AT1G43670
5	PWY-622 starch biosynthesis within pathway co-expression p value: <0.0001 ATH1 regression results PLC results: 1e-80 p cutoff PLC results: 1e-120 p cutoff	248687_at : AT5G48300 255070_at : AT4G09020 263201_at : AT1G05610 267356_at : AT2G39930 249927_at : AT5G19220 264903_at : AT1G23190 248380_at : AT5G51820 252888_at : AT4G39210 249163_at : AT5G42740 246412_at : AT5G17530 257667_at : AT3G20440 254107_at : AT4G25220 261642_at : AT1G27680 250906_at : AT5G03650 254141_at : AT4G24620 263213_at : AT1G30560 263912_at : AT2G36390 260207_at : AT1G70730 263544_at : AT2G21590
6	COLANSYN-PWY colanic acid building blocks biosynthesis within pathway co-expression p value: <0.0001 ATH1 regression results PLC results: 1e-80 p cutoff PLC results: 1e-120 p cutoff	252121_at : AT3G51160 255797_at : AT2G33630 249057_at : AT5G44480 258483_at : AT3G02570 249927_at : AT5G19220 261017_at : AT1G26570 261953_at : AT1G64440 255696_at : AT4G00110 256368_at : AT1G66800 255881_at : AT1G67070 258766_at : AT3G10700 247094_at : AT5G66280 254812_at : AT4G12250 255901_at : AT1G17890 253334_at : AT4G33360 246511_at : AT5G15490 254468_at : AT4G20460 266221_at : AT2G28760 263676_at : AT1G09340 262174_at : AT1G74910 252769_at : AT3G42850 258517_at : AT3G06580 261685_at : AT1G47290 261043_at : AT1G01220 255682_at : AT4G00560 247834_at : AT5G58490 259162_at : AT3G01640 249469_at : AT5G39320 256745_at : AT3G29360 246778_at : AT5G27450 263619_at : AT2G04650 267429_at : AT2G34850 250074_at : AT5G17310 245133_at : AT2G45310 261624_at : AT1G02000 246017_at : AT5G10730 251157_at : AT3G63140 256865_at : AT3G23820 250182_at : AT5G14470 259694_at : AT1G63180 267434_at : AT2G26260 261211_at : AT1G12780 245478_at : AT4G16130 253631_at : AT4G30440 255845_at : AT2G33600 258849_at : AT3G03250 266928_at : AT2G45790 266202_at : AT2G02400 255787_at : AT2G33590 253623_at : AT4G30570 260550_at : AT2G43420 263134_at : AT1G78570 253197_at : AT4G35250
7	CHLOROPHYLL-SYN chlorophyll biosynthesis within pathway co-expression p value: <0.0001 ATH1 regression results PLC results: 1e-80 p cutoff PLC results: 1e-120 p cutoff	255537_at : AT4G01690 248330_at : AT5G52810 264085_at : AT2G31250 255402_at : AT4G03205 253871_at : AT4G27440 248197_at : AT5G54190 255413_at : AT4G03140 248920_at : AT5G45930 245356_at : AT4G13940 257173_at : AT3G23810 257687_at : AT3G12800 262933_at : AT1G65840 248296_at : AT5G53090 245964_at : AT5G19720 264660_at : AT1G09940 258983_at : AT3G08860 245245_at : AT1G44318 255826_at : AT2G40490 250243_at : AT5G13630 247392_at : AT5G63570 267035_at : AT2G38400 261695_at : AT1G08520 252318_at : AT3G48730 254623_at : AT4G18480 256020_at : AT1G58290 254928_at : AT4G11410 246033_at : AT5G08280 247367_at : AT5G63290 267169_at : AT2G37540 246308_at : AT3G51820 248297_at : AT5G53100 247940_at : AT5G57190 253692_at : AT4G29720 257458_at : AT2G05400 257219_at : AT3G14930 246537_at : AT5G15940 245975_at : AT5G13070 248508_at : AT5G50320 248879_at : AT5G46180 251480_at : AT3G59710 245242_at : AT1G44446 265244_at : AT2G43020 251505_at : AT3G59050 250221_at : AT5G14220 251013_at : AT5G02540 260370_at : AT1G69740 264839_at : AT1G03630 248539_at : AT5G50130 247319_at : AT5G64050
8	FASYN-INITIAL-PWY fatty acid biosynthesis -- initial steps within pathway co-expression p value: <0.0001 ATH1 regression results PLC results: 1e-80 p cutoff PLC results: 1e-120 p cutoff	256459_at : AT1G36180 266099_at : AT2G38040 255703_at : AT4G00040 246613_at : AT5G35360 263606_at : AT2G16280 261420_at : AT1G07720 263192_at : AT1G36160 260667_at : AT1G19440 251712_at : AT3G56120 267377_at : AT2G26250 265120_at : AT1G62640 264318_at : AT1G04220 262157_at : AT1G52670 250125_at : AT5G16390 253285_at : AT4G34250 267308_at : AT2G30200 264175_at : AT1G02050 258269_at : AT3G15690 262032_at : AT1G37150 252035_at : AT3G52160 253240_at : AT4G34510 263443_at : AT2G28630 255732_at : AT1G25450 249123_at : AT5G43760 267606_at : AT2G26640 253222_at : AT4G34850 265918_at : AT2G15090 264790_at : AT2G17820 262176_at : AT1G74960 251736_at : AT3G56130
9	DENOVOPURINE2-PWY de novo biosynthesis of purine nucleotides I within pathway co-expression p value: <0.0001 ATH1 regression results PLC results: 1e-80 p cutoff PLC results: 1e-120 p cutoff	264128_at : AT1G79190 248748_at : AT5G47840 251599_at : AT3G57610 254958_at : AT4G11010 265439_at : AT2G21045 247389_at : AT5G63490 254052_at : AT4G25280 251426_at : AT3G60180 263239_at : AT2G16570 248802_at : AT5G47435 256978_at : AT3G21110 262854_at : AT1G20870 245417_at : AT4G17360 262754_at : AT1G16350 248506_at : AT5G50370 258106_at : AT3G23580 258998_at : AT3G01820 253621_at : AT4G30540 251830_at : AT3G55010 266562_at : AT2G23970 262943_at : AT1G79470 267421_at : AT2G35040 246651_at : AT5G35170 267537_at : AT2G41880 254191_at : AT4G23900 253639_at : AT4G30550 247382_at : AT5G63400 247376_at : AT5G63310 249252_at : AT5G42010 255089_at : AT4G09320 262871_at : AT1G65010 263882_at : AT2G21790 256361_at : AT1G66520 252967_at : AT4G38880 253606_at : AT4G30530 253213_at : AT4G34910 258243_at : AT3G27740 265257_at : AT2G20420 250403_at : AT5G10920 265958_at : AT2G37250 260294_at : AT1G63660 253252_at : AT4G34740 256401_at : AT3G06200 263440_at : AT2G28640 250484_at : AT5G10240 251643_at : AT3G57550
10	PWY-841 de novo biosynthesis of purine nucleotides II within pathway co-expression p value: <0.0001 ATH1 regression results PLC results: 1e-80 p cutoff PLC results: 1e-120 p cutoff	264128_at : AT1G79190 251599_at : AT3G57610 263239_at : AT2G16570 247389_at : AT5G63490 265439_at : AT2G21045 248802_at : AT5G47435 256978_at : AT3G21110 262854_at : AT1G20870 245417_at : AT4G17360 262754_at : AT1G16350 253621_at : AT4G30540 251830_at : AT3G55010 266562_at : AT2G23970 262943_at : AT1G79470 267421_at : AT2G35040 253639_at : AT4G30550 249252_at : AT5G42010 256361_at : AT1G66520 262871_at : AT1G65010 252967_at : AT4G38880 253606_at : AT4G30530 253213_at : AT4G34910 258243_at : AT3G27740 265257_at : AT2G20420 250403_at : AT5G10920 260294_at : AT1G63660 253252_at : AT4G34740 263440_at : AT2G28640 250484_at : AT5G10240
11	PWY-601 glucosinolate biosynthesis from tryptophan within pathway co-expression p value: <0.0001 ATH1 regression results PLC results: 1e-80 p cutoff	264052_at : AT2G22330 253534_at : AT4G31500 252827_at : AT4G39950
12	CAROTENOID-PWY carotenoid biosynthesis within pathway co-expression p value: <0.0001 ATH1 regression results PLC results: 1e-80 p cutoff PLC results: 1e-120 p cutoff	250095_at : AT5G17230 245284_at : AT4G14210 259092_at : AT3G04870 247936_at : AT5G57030 254020_at : AT4G25700 260821_at : AT1G06820 264799_at : AT1G08550 247025_at : AT5G67030 248311_at : AT5G52570 259140_at : AT3G10230
13	GLYCCAT-PWY glycine degradation I within pathway co-expression p value: <0.0001 ATH1 regression results PLC results: 1e-80 p cutoff PLC results: 1e-120 p cutoff	264394_at : AT1G11860 266636_at : AT2G35370 259715_at : AT1G60990 253387_at : AT4G33010 266517_at : AT2G35120 266892_at : AT2G26080 260704_at : AT1G32470 254854_at : AT4G12130
14	CALVIN-PWY Calvin cycle within pathway co-expression p value: <0.0001 ATH1 regression results PLC results: 1e-80 p cutoff PLC results: 1e-120 p cutoff	253971_at : AT4G26530 250917_at : AT5G03690 265735_at : AT2G01140 257699_at : AT3G12780 259749_at : AT1G71100 257737_at : AT3G27440 251801_at : AT3G55440 253966_at : AT4G26520 259098_at : AT3G04790 257174_at : AT3G27190 263921_at : AT2G36460 262944_at : AT1G79550 249002_at : AT5G44520 261206_at : AT1G12800