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. 2013 Dec 3;8(12):e81849. doi: 10.1371/journal.pone.0081849

Table 1. GO analysis of differentially expressed probe sets between Ubi::OsSPX1-antisense transgenic lines and WT (Nipponbare).

GO term GO name Qnum   B/Rnum   FDR p-value
518 probe sets down-regulated in Ubi::OsSPX1-antisense transgenic lines
Biological Process 265 21427
GO:0009407 toxin catabolic process 8 89 5.08E-06
GO:0009404 toxin metabolic process 8 113 4.01E-04
GO:0009626 plant-type hypersensitive response 11 218 1.32E-03
GO:0009636 response to toxin 8 130 1.83E-03
GO:0009812 flavonoid metabolic process 6 105 3.26E-02
GO:0009813 flavonoid biosynthetic process 6 105 3.26E-02
GO:0042221 response to chemical stimulus 34 1509 4.02E-02
Molecular Function 320 27148
GO:0008393 fatty acid (omega-1)-hydroxylase activity 3 5 2.82E-12
GO:0009674 potassium:sodium symporter activity 3 10 8.22E-07
GO:0022820 potassium ion symporter activity 3 10 8.22E-07
GO:0004364 glutathione transferase activity 9 179 7.28E-03
GO:0008493 tetracycline transporter activity 3 21 8.84E-03
Cellular Component 338 29111
GO:0012505 endomembrane system 90 5277 8.84E-03
748 probe sets up-regulated in Ubi::OsSPX1-antisense transgenic lines
Biological Process 370 21427
GO:0006270 DNA replication initiation 8 19 1.49E-22
GO:0009687 abscisic acid metabolic process 6 21 3.16E-11
GO:0009688 abscisic acid biosynthetic process 6 21 3.16E-11
GO:0015979 photosynthesis 24 387 9.08E-08
GO:0009405 pathogenesis 13 157 4.20E-06
GO:0006306 DNA methylation 4 20 2.83E-04
GO:0009686 gibberellin biosynthetic process 5 33 3.03E-04
GO:0007018 microtubule-based movement 8 85 4.26E-04
GO:0009685 gibberellin metabolic process 5 44 9.08E-03
GO:0010182 sugar mediated signaling 4 32 2.92E-02
GO:0009814 defense response, incompatible interaction 11 202 3.55E-02
GO:0015712 hexose phosphate transport 4 33 3.55E-02
Molecular Function 439 27148
GO:0001882 nucleoside binding 3 5 4.95E-08
GO:0003954 NADH dehydrogenase activity 33 656 5.14E-08
GO:0003886 DNA (cytosine-5-)-methyltransferase activity 3 7 4.03E-06
GO:0008137 NADH dehydrogenase (ubiquinone) activity 7 55 1.73E-05
GO:0016651 oxidoreductase activity, acting on NADH or NADPH 36 898 2.82E-05
GO:0051539 4 iron, 4 sulfur cluster binding 3 11 6.24E-04
GO:0003777 microtubule motor activity 9 127 6.61E-03
GO:0003989 acetyl-CoA carboxylase activity 14 275 1.09E-02
GO:0008094 DNA-dependent ATPase activity 8 109 1.13E-02
GO:0008254 3'-nucleotidase activity 3 18 4.30E-02
GO:0019133 choline monooxygenase activity 3 18 4.30E-02
Cellular Component 491 29111
GO:0009512 cytochrome b6f complex 13 101 2.74E-12
GO:0043601 nuclear replisome 3 5 9.53E-09
GO:0009579 thylakoid 29 549 7.03E-08
GO:0009523 photosystem II 21 367 2.22E-06
GO:0009522 photosystem I 12 167 5.86E-05
GO:0044436 thylakoid part 16 306 7.08E-04
GO:0009539 photosystem II reaction center 6 66 4.93E-03
GO:0005875 microtubule associated complex 8 131 3.57E-02
GO:0009941 chloroplast envelope 13 295 4.91E-02
GO:0043245 extraorganismal space 10 197 4.91E-02