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Table 2 Functional classification

From: Global gene expression analysis of apple fruit development from the floral bud to ripe fruit

  Mips codea Whole arrayb selected FB EFD MD R EFD1 EFD2 R1 R2 R3
Metabolism 1 16.1 20.3 21.5 20.1 17.2 20.9 18.3 21.1 21.7 25.4 18.4
Energy 2 2.9 3.4 3.0 2.8 2.1 4.5 2.2 3.1 3.0 5.0 4.4
Cell Cycle and DNA processing 3 2.9 2.5 1.8 3.4 1.4 1.9 3.3 3.5 0.7 1.9 2.4
Transcription 4 5.2 4.1 4.3 4.1 4.1 3.9 4.4 4.0 3.3 3.1 4.6
Protein synthesis 5 2.0 1.7 1.5 1.6 1.8 2.0 1.5 1.6 2.7 0.7 2.6
Protein fate 6 6.6 5.4 4.6 5.0 5.5 6.0 4.5 5.3 4.0 4.7 7.1
Cellular transport & mechanisms 8 2.4 1.7 1.8 1.6 2.6 1.7 2.1 1.3 0.7 1.7 1.8
Cellular comm/signaling 10 6.4 5.6 6.5 5.5 5.1 5.6 5.9 5.4 9.0 5.6 4.9
Cell rescue, defense & virulence 11 3.6 4.0 4.1 4.1 4.6 3.6 3.3 4.6 5.7 4.3 2.9
Regulation of/interaction with cellular environment 13 1.7 1.6 2.1 1.7 2.8 1.1 1.7 1.7 0.3 1.1 1.3
Cell fate 14 3.2 2.6 2.3 2.5 1.5 3.2 2.4 2.6 3.7 2.6 3.3
Systemic regulation of/interaction with environment 20 1.1 1.3 1.5 1.3 1.1 1.1 1.9 0.9 1.3 1.1 1.1
Development 25 1.0 1.2 1.2 1.4 1.1 0.9 1.2 1.5 2.0 0.6 0.8
Transposable elements, viral and plasmid proteins 29 0.1 0.1 0.1 0.0 0.0 0.1 0.0 0.1 0.0 0.2 0.0
Control of cellular organisation 30 2.7 3.2 2.7 3.8 4.6 2.4 4.8 3.3 2.7 2.3 2.4
Subcellular localisation 40 19.1 18.1 15.9 17.4 19.8 19.2 17.5 17.4 16.0 18.0 20.5
Protein activity regulation 62 0.0 0.1 0.2 0.1 0.0 0.0 0.2 0.1 0.0 0.0 0.0
Protein with binding function or cofactor requirement 63 3.2 2.9 2.7 2.8 4.4 2.8 2.3 3.1 2.3 3.1 2.7
Storage protein 65 0.1 0.0 0.1 0.0 0.0 0.0 0.1 0.0 0.0 0.1 0.0
Transport facilitation 67 3.9 3.6 4.4 3.2 2.9 3.7 3.4 3.1 3.0 4.3 3.7
Unclassified 98 or 99 15.7 16.7 17.8 17.4 17.5 15.2 19.1 16.4 18.0 14.2 15.1
  1. The table shows the distribution of classifications as a percentage of the total number of classifications.
  2. a Apple genes for each EST on the array were used to identify Arabidopsis homologues using BLAST with a cutoff of 1 e-5. Where a putative homologue was identified, the Arabidopsis MIPS (Munich Information centre for Protein Sequences, funcat version 1.3) classification(s) for that gene were applied to the apple EST.
  3. b For the whole array, for the features selected as changing during fruit development, and for each of the clusters and sub-clusters the frequency of occurrence for each functional category is shown as a percentage of the total number of functional categories for that cluster (or sub-cluster). FB = Full bloom; EFD = early fruit development; MD = mid-development; R = ripening; R1, R2, R3 = the 3 ripening sub-clusters; EFD1, EFD2 = the 2 early fruit development sub-clusters.