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Table 1 Identification of over- and under-represented gene ontology (GO) terms in differentially-expressed gene set.

From: Transcriptome analysis identifies novel responses and potential regulatory genes involved in seasonal dormancy transitions of leafy spurge (Euphorbia esula L.)

GO_Biological function number of elements on the array number of elements differentially expressed number of elements expected to be differentially expressed fold over or under represented p-value Adjusted p-value
response to jasmonic acid stimulus 46 12 1.83 6.63 1.45E-07 3.93E-06
unidimensional cell growth 15 7 0.60 11.86 6.96E-07 1.88E-05
Transport 317 32 12.61 2.57 1.19E-06 3.23E-05
signal transduction 91 9 3.62 2.51 0.01 0.26
response to oxidative stress 61 7 2.43 2.92 0.01 0.27
biological process unknown 5116 231 203.57 1.15 0.01 0.27
Metabolism 507 31 20.17 1.55 0.01 0.29
circadian rhythm 15 3 0.60 5.08 0.02 0.52
Growth 8 2 0.32 6.35 0.04 1
extracellular matrix organization and biogenesis 1 1 0.04 25.42 0.04 1
cell death 9 2 0.36 5.65 0.05 1
response to hormone stimulus 2 1 0.08 12.71 0.08 1
response to temperature stimulus 2 1 0.08 12.71 0.08 1
response to stress 43 4 1.71 2.36 0.09 1
response to cold 3 1 0.12 8.47 0.11 1
response to wounding 18 2 0.72 2.82 0.16 1
Aging 20 2 0.80 2.54 0.18 1
response to auxin stimulus 22 2 0.88 2.31 0.21 1
gibberellic acid mediated signaling 10 1 0.40 2.54 0.33 1
sugar mediated signaling 12 1 0.48 2.12 0.38 1
Biosynthesis 105 5 4.18 1.21 0.40 1
defense response 158 7 6.29 1.13 0.43 1
response to water deprivation 15 1 0.60 1.69 0.45 1
embryonic development (sensu Magnoliophyta) 23 1 0.92 1.11 0.60 1
response to heat 30 1 1.19 -1.18 0.70 1
photosynthesis 37 1 1.47 -1.46 0.77 1
Undetermined 18420 631 732.96 -1.15 1 1
  1. The number of differentially-expressed genes with a given GO annotation present on the array was used to determine the expected number of differentially-expressed genes with that annotation. The number of observed differentially expressed genes was compared to the expected number to provide a fold over or under representation. P-values and false discovery rates (adjusted P-values) were identified.