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Table 1 Developmental dissection of developmentally regulated genes in Pima and TM1 fiber transcriptomes revealed species- and stage-specific clusters.

From: Double feature selection and cluster analyses in mining of microarray data from cotton

Data sets

No. of genes (%)

No. of clusters

Stage specific clusters (genes)

Description (%)

Pima developmentally regulated profile

2943 (24.39)

10

1 (323), 5 (239)

Up1 during PCW synthesis only (4.65)

   

2 (232), 9 (209)

Up1 during SCW deposition only (3.65)

   

4 (399)

Up1 in PCW and SCW (3.31)

   

3(493), 6(588), 8 (217)

Down2 in PCW and SCW (10.76)

   

7 (77), 10 (86),

Oscillating (1.35)

TM1 developmentally regulated profile

2281 (18.90)

8

5 (234), 8 (122)

Up1 during PCW synthesis only (2.95)

   

6 (160), 7 (400)

Up1 during SCW deposition only (4.64)

   

1 (353)

Up1 in PCW and SCW (2.92)

   

2(392), 3(517), 4 (103)

Down2 in PCW and SCW (8.38)

Top differentially expressed genes between Pima and TM1 profiles of fiber transcriptome

1167 (9.67)

2

1 (465)

Pima specific pattern (3.85)

   

2 (702)

TM1 specific pattern (5.81)

  1. 1 Up-regulated, 2 Down-regulated; All percentages in this table were calculated relative to the total number of profiled genes (12063 after filtration) in this study