Table 2

Significantly enriched GO terms in transcript groups
GO term
 Number in test group
 Number in
reference group
 GO description
Anther-specific (667)
16,538
 7
 2
 Cyclin-dependent protein kinase regulator activity
6,139
 120
 591
 Nucleobase, nucleoside, nucleotide and nucleic acid metabolism
6,270
 5
 1
 DNA replication initiation




Pollen-specific (165)
30,599
 9
 10
 Pectinesterase activity
4,857
 10
 23
 Enzyme inhibitor activity
16,787
 54
 789
 Hydrolase activity
31,410
 39
 513
 Cytoplasmic vesicle
16,023
 39
 513
 Cytoplasmic membrane-bound vesicle
16,789
 10
 38
 Carboxylic ester hydrolase activity
4,553
 12
 62
 Hydrolase activity, hydrolyzing O-glycosyl compounds
45,045
 39
 547
 Secretory pathway
46,903
 39
 550
 Secretion
16,798
 12
 69
 Hydrolase activity, acting on glycosyl bonds
5,576
 8
 28
 Extracellular region
42,545
 4
 2
 Cell wall modification
6,810
 57
 1,063
 Transport
51,234
 57
 1,065
 Establishment of localization
3,779
 6
 16
 Actin binding
51,179
 57
 1,068
 Localization
8,092
 7
 25
 Cytoskeletal protein binding
30,234
 10
 65
 Enzyme regulator activity
45,330
 3
 1
 Aspartyl esterase activity
7,010
 10
 68
 Cytoskeleton organization and biogenesis
3,824
 94
 2,170
 Catalytic activity
5,618
 6
 22
 Cell wall
30,312
 6
 24
 External encapsulating structure
8,150
 136
 3,596
 Biological_process
30,036
 5
 16
 Actin cytoskeleton organization and biogenesis




Leaf-specific (490)
9,536
 152
 1,073
 Plastid
19,825
 5
 3
 Oxygen binding




Expressed in all three tissue types (1,091)
12,505
 29
 43
 Endomembrane system




Differentially expressed, ND101/W23 pollen versus W23 pollen (47)
43,067
 4
 28
 Regulation of programmed cell death
42,981
 4
 28
 Regulation of apoptosis
6,916
 3
 12
 Anti-apoptosis
43,069
 3
 14
 Negative regulation of programmed cell death
43,066
 3
 14
 Negative regulation of apoptosis




Differentially expressed, ND101/W23 juvenile leaf versus W23 juvenile leaf (158)
16,491
 22
 304
 Oxidoreductase activity
9,507
 15
 169
 Chloroplast
9,579
 7
 40
 Thylakoid

Only transcripts that showed detectable expression in all three lines were considered. The number of transcripts with GO terms assigned for each test group is shown in parentheses following the group description. The reference group comprises the rest of the transcriptome. The p values for each GO term are: p < 0.0005 for single testing, FWER adjusted p < 0.1 and FDR < 0.1. See Materials and methods for details.

Ma et al. Genome Biology 2006 7:R22   doi:10.1186/gb-2006-7-3-r22

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