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Table 2 Differential expression tests

From: Gene expression profiling during adventitious root formation in carnation stem cuttings

Test Data subset Model formula Contrast tested DEGs
1 All C + Ti + C : Ti 2003 R 8 vs. 2101–02 MFR 23,029
2 All C + Ti + C : Ti 2003 R 8:Ti 1 vs.2003 R 8:Ti 2 3,820
3 All C + Ti + C : Ti 2003 R 8:Ti 1 vs. 2003 R 8:Ti 3 4,645
4 All C + Ti + C : Ti 2003 R 8:Ti 1 vs. 2003 R 8:Ti 4 5,880
5 All C + Ti + C : Ti 2003 R 8:Ti 2 vs. 2003 R 8:Ti 3 2,828
6 All C + Ti + C : Ti 2003 R 8:Ti 2 vs. 2003 R 8:Ti 4 2,983
7 All C + Ti + C : Ti 2003 R 8:Ti 3 vs. 2003 R 8:Ti 4 690
8 All C + Ti + C : Ti 2101-02 MFR:Ti 1 vs. 2101–02 MFR:Ti 2 11,536
9 All C + Ti + C : Ti 2101-02 MFR:Ti 1 vs. 2101–02 MFR:Ti 3 12,694
10 All C + Ti + C : Ti 2101-02 MFR:Ti 1 vs. 2101–02 MFR:Ti 4 12,129
11 All C + Ti + C : Ti 2101-02 MFR:Ti 2 vs. 2101–02 MFR:Ti 3 9,336
12 All C + Ti + C : Ti 2101-02 MFR:Ti 2 vs. 2101–02 MFR:Ti 4 9,125
13 All C + Ti + C : Ti 2101-02 MFR:Ti 3 vs. 2101–02 MFR:Ti 4 3,430
14 2003 R 8 Ti + Ti : Tr Ti 1:Aux vs. Ti 1:Mock 86
15 2003 R 8 Ti + Ti : Tr Ti 2:Aux vs. Ti 2:Mock 1
16 2003 R 8 Ti + Ti : Tr Ti 3:Aux vs. Ti 3:Mock  
17 2003 R 8 Ti + Ti : Tr Ti 4:Aux vs. Ti 4:Mock 6
18 2101-02 MFR Ti + Ti : Tr Ti 1:Aux vs. Ti 1:Mock 1,188
19 2101-02 MFR Ti + Ti : Tr Ti 2:Aux vs. Ti 2:Mock 21
20 2101-02 MFR Ti + Ti : Tr Ti 3:Aux vs. Ti 3:Mock 1
21 2101-02 MFR Ti + Ti : Tr Ti 4:Aux vs. Ti 4:Mock  
  1. Datasets were fitted to the corresponding formula (C = cultivar, Ti = time point, Tr = treatment; additive effects are represented by “+”; “:” represents interaction). After model fitting, selected factors were tested (Ti 1 = 0 hAP, Ti 2 = 6 hAP, Ti 3 = 24 hAP, Ti 4 = 54 hAP). DEG: Differential expressed genes; P-adj. < 0.05 (Benjamini-Hochberg correction)