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. 2016 Nov 15;28(11):2735–2754. doi: 10.1105/tpc.16.00470

Table 2. GO Enrichment Analysis of Maturation Modules Obtained from Gene Coexpression Analysis.

GO Term Ontology Description No. in Input List #BG/Ref FDR
Module I
 GO:0042545 P Cell wall modification 4 386 0.0081
 GO:0030599 F Pectin esterase activity 4 148 1.60E-11
 GO:0005618 C Cell wall 10 618 7.90E-20
 GO:0048046 C Apoplast 5 406 1.70E-06
Module II, cluster a
 GO:0009793 P Embryonic development ending in seed dormancy 6 465 0.00014
 GO:0048316 P Seed development 6 530 0.00046
 GO:0006952 P Defense response 7 766 0.00082
 GO:0009725 P Response to hormone stimulus 8 982 0.00091
 GO:0009628 P Response to abiotic stimulus 10 1471 0.0012
 GO:0009266 P Response to temperature stimulus 5 485 0.0036
 GO:0019748 P Secondary metabolic process 5 489 0.0036
 GO:0048608 P Reproductive structure development 7 978 0.0076
Module II, cluster b
 GO:0015979 P Photosynthesis 7 162 5.00E-19
 GO:0006091 P Generation of precursor metabolites and energy 5 285 0.00028
 GO:0006952 P Defense response 7 766 0.023
Module II, cluster c
 GO:0006915 P Apoptosis 4 159 2.80E-07
 GO:0012501 P Programmed cell death 4 244 0.00035
 GO:0006457 P Protein folding 4 275 0.00083
 GO:0009408 P Response to heat 3 161 0.0011
 GO:0006952 P Defense response 6 766 0.0088
 GO:0009743 P Response to carbohydrate stimulus 3 240 0.036
Module III
 GO:0015979 P Photosynthesis 13 162 5.30E-26
 GO:0010218 P Response to far red light 5 57 3.70E-09
 GO:0009637 P Response to blue light 5 69 2.40E-07
 GO:0006066 P Alcohol metabolic process 9 270 2.10E-05
 GO:0006629 P Lipid metabolic process 16 841 0.00043
 GO:0009416 P Response to light stimulus 12 596 0.0024
 GO:0006461 P Protein complex assembly 5 134 0.0031
 GO:0009314 P Response to radiation 12 613 0.0031
 GO:0009409 P Response to cold 8 328 0.0047
 GO:0009699 P Phenylpropanoid biosynthetic process 5 141 0.0047
 GO:0006952 P Defense response 12 766 0.04

Analysis was performed using AgriGO applying a χ2 test with the Yekutieli multitest adjustment method. #BG/ref, number of genes annotated in GO term in background; FDR, false discovery rate; P, biological process; F, molecular function, C, cellular component.