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Table 3 Plant ontology terms enriched for 20 query genes (excluding RAV1) and top 200 new candidates revealed in AraNet.

From: A new RNASeq-based reference transcriptome for sugar beet and its application in transcriptome-scale analysis of vernalization and gibberellin responses

Rank ID Description p-value Adjusted p-value N m n k
1 PO:0007095 LP.08 eight leaves visible 8.88 × 10-22 3.28 × 10-19 27029 220 12122 168
2 PO:0009052 Pedicel 1.85 × 10-21 3.42 × 10-19 27029 220 13566 178
3 PO:0007098 LP.02 two leaves visible 4.03 × 10-21 4.96 × 0-19 27029 220 12268 168
4 PO:0009006 Shoot 9.21 × 10-21 8.50 × 10-19 27029 220 12752 171
5 PO:0020030 Cotyledon 2.23 × 10-20 1.37 × 10-18 27029 220 12304 167
6 PO:0008019 leaf lamina base 2.46 × 10-20 1.37 × 10-18 27029 220 12580 169
7 PO:0001078 E expanded cotyledon stage 2.78 × 10-20 1.37 × 10-18 27029 220 13839 178
8 PO:0001185 C globular stage 2.99 × 10-20 1.37 × 10-18 27029 220 13704 177
9 PO:0000013 cauline leaf 3.47 × 10-20 1.37 × 10-18 27029 220 12885 171
10 PO:0004507 D bilateral stage 3.71 × 10-20 1.37 × 10-18 27029 220 13726 177
11 PO:0007115 LP.04 four leaves visible 5.20 × 10-20 1.74 × 10-18 27029 220 13619 176
12 PO:0020038 Petiole 6.00 × 10-20 1.85 × 10-18 27029 220 12403 167
13 PO:0001054 4 leaf senescence stage 7.76 × 10-20 2.20 × 10-18 27029 220 12831 170
14 PO:0001081 F mature embryo stage 1.05 × 10-19 2.76 × 10-18 27029 220 13272 173
15 PO:0009010 Seed 1.42 × 10-19 3.50 × 10-18 27029 220 14008 178
16 PO:0020137 leaf apex 2.38 × 10-19 5.50 × 10-18 27029 220 12811 169
17 PO:0007103 LP.10 ten leaves visible 3.94 × 10-19 8.55 × 10-18 27029 220 12595 167
18 PO:0009009 Embryo 5.61 × 10-19 1.06 × 10-17 27029 220 14737 182
19 PO:0007064 LP.12 twelve leaves visible 5.64 × 10-19 1.06 × 10-17 27029 220 12106 163
20 PO:0007123 LP.06 six leaves visible 5.72 × 10-19 1.06 × 10-17 27029 220 12501 166
21 PO:0009032 Petal 6.26 × 10-19 1.10 × 10-17 27029 220 14601 181
22 PO:0009025 Leaf 1.48 × 10-18 2.49 × 10-17 27029 220 14991 183
23 PO:0000230 inflorescence meristem 3.71 × 10-18 5.96 × 10-17 27029 220 12965 168
24 PO:0009047 Stem 9.59 × 10-18 1.48 × 10-16 27029 220 14033 175
25 PO:0020100 Hypocotyls 2.22 × 10-17 3.28 × 10-16 27029 220 14126 175
26 PO:0000037 shoot apex 9.61 × 10-17 1.36 × 10-15 27029 220 14291 175
27 PO:0009029 Stamen 1.23 × 10-16 1.68 × 10-15 27029 220 13898 172
28 PO:0009031 Sepal 1.89 × 10-16 2.49 × 10-15 27029 220 15385 182
29 PO:0008034 leaf whorl 2.07 × 10-16 2.63 × 10-15 27029 220 15696 184
30 PO:0007611 petal differentiation and expansion stage 1.70 × 10-15 2.09 × 10-14 27029 220 16404 187
31 PO:0009005 Root 1.78 × 10-15 2.12 × 10-14 27029 220 14917 177
32 PO:0009046 Flower 6.43 × 10-15 7.42 × 10-14 27029 220 16565 187
33 PO:0007616 4 anthesis 8.20 × 10-15 9.17 × 10-14 27029 220 16135 184
34 PO:0009030 Carpel 9.14 × 10-14 9.92 × 10-13 27029 220 13867 166
35 PO:0020091 male gametophyte 2.77 × 10-10 2.92 × 10-09 27029 220 12609 148
36 PO:0000293 guard cell 1.10 × 10-06 1.13 × 10-05 27029 220 1815 35
37 PO:0000084 sperm cell 1.35 × 10-05 0.000135 27029 220 5341 69
38 PO:0020092 female gametophyte 0.000703 0.006825 27029 220 22 3
39 PO:0007131 seedling growth 0.001218 0.01152 27029 220 862 16
  1. A total of 39 out of 369 terms were enriched by adjusted p value < 0.05
  2. Description of columns: [Rank] [ID] [Description] [p-value (by Hypergeometric test)] [Adjusted p-value (by False discovery rate)] [N = # of total Arabidopsis genes] [m = # of query genes] [n = # of genes for the PO term] [k = # of genes for intersection between m and n]