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Expression of 1-1-2.2.2.6

r value cutoff
Experiment: Wild type tomato fruit development (set 1)
hybridizationratioFDR (corrected p value)
17DAP/7DAP0.793820.169
27DAP/17DAP1.223010.86
39DAP/27DAP1.241460.692
41DAP/39DAP1.093210.859
42DAP/41DAP0.866161
43DAP/42DAP0.905280.801
47DAP/43DAP1.222060.793
52DAP/47DAP0.961990.851
57DAP/52DAP1.025210.993

Experiment: Wild type tomato fruit development (set 2)
hybridizationratioFDR (corrected p value)
7DAP/reference0.978940.55
17DAP/reference1.086250.248
27DAP/reference0.964870.484
39DAP/reference1.042980.486
41DAP/reference1.165230.023
42DAP/reference0.938830.115
43DAP/reference1.118080.382
47DAP/reference0.958280.258
52DAP/reference0.871720.105
57DAP/reference0.904990.056

Experiment: tomato Never-ripe mutant fruit development
hybridizationratioFDR (corrected p value)
17DAP/7DAP1.156630.508
27DAP/17DAP1.187910.719
39DAP/27DAP0.883760.563
41DAP/39DAP1.151270.727
42DAP/41DAP0.973240.772
43DAP/42DAP1.40610.382
47DAP/43DAP1.035590.99
52DAP/47DAP1.40640.29
57DAP/52DAP1.459460.35
57DAP/7DAP1.244041

Experiment: tomato rin mutant fruit development
hybridizationratioFDR (corrected p value)
7DAP/reference0.84153N/A
17DAP/reference1.779490.009
27DAP/reference1.751070.131
39DAP/reference0.842240.198
41DAP/reference0.933360.375
42DAP/reference1.667320.308
43DAP/reference0.92680.48
47DAP/reference1.016731
52DAP/reference1.226410.941
57DAP/reference1.094480.356

Experiment: tomato nor mutant fruit development
hybridizationratioFDR (corrected p value)
7DAP/reference1.06450.741
17DAP/reference0.970120.523
27DAP/reference0.924080.195
39DAP/reference0.946040.243
41DAP/reference0.910270.188
42DAP/reference0.749060.011
43DAP/reference0.986730.657
47DAP/reference0.872380.068
52DAP/reference1.085080.135
57DAP/reference1.191690.112

Experiment: tomato hp1 mutant fruit development
hybridizationratioFDR (corrected p value)
7DAP/reference1.930190.031
17DAP/reference1.150150.563
27DAP/reference1.275770.096
39DAP/reference1.270070.203
41DAP/reference1.289280.657
42DAP/reference1.099460.923
43DAP/reference2.49260.214
47DAP/reference0.890880.114
52DAP/reference1.666990.1
57DAP/reference0.737470.016

Experiment: Wild type pepper fruit development
hybridizationratioFDR (corrected p value)
20DAP/14DAP0.96221
26DAP/20DAPN/AN/A
34DAP/26DAP1.262710.819
51DAP/34DAP0.900080.785
52DAP/51DAP1.158660.86
53DAP/52DAP1.156990.935
55DAP/53DAP0.945520.775
57DAP/55DAP0.981720.859
62DAP/57DAP1.161160.833
68DAP/62DAP0.897960.641
68DAP/14DAP0.841051

Experiment: Tomato (breaker-stage) vs. Pepper (breaker-stage)
hybridizationratioFDR (corrected p value)
Tomato Breaker/Pepper Breaker1.09348N/A

Experiment: Solanaceae fruit comparison
hybridizationratioFDR (corrected p value)
Green Pepper/Ripe PepperN/AN/A
Mature Green Tomato/Ripe Tomato0.423760.055
Immature Eggplant/Mature EggplantN/AN/A
Ripe Pepper/Ripe TomatoN/AN/A
Mature Eggplant/Ripe TomatoN/AN/A

Experiment: IL carotenoid
hybridizationratioFDR (corrected p value)
11-1/M82N/AN/A
1-1-2/M820.88197N/A
12-2/M82N/AN/A
12-4/M82N/AN/A
1-3/M82N/AN/A
2-1-1/M82N/AN/A
2-1/M82N/AN/A
2-6/M82N/AN/A
3-2/M82N/AN/A
4-1-1/M82N/AN/A
4-1/M82N/AN/A
4-3-2/M82N/AN/A
4-3/M82N/AN/A
5-3/M821.06298N/A
6-2/M82N/AN/A
6-3/M82N/AN/A
7-1/M82N/AN/A
7-2/M82N/AN/A
9-3-2/M82N/AN/A

Experiment: Tomato introgression line transcript analysis
hybridizationratioFDR (corrected p value)
IL4-4/WTpooled0.9430.321
IL2-6/WTpooled1.075980.659
IL7-5/WTpooled0.477250.219
IL7-3/WTpooled1.038161
IL12-4/WTpooled1.061780.695
IL1-4/WTpooled1.042340.421
WT/WTpooled1.066881

Experiment: Transcriptional changes determined by expression of the Xanthomonas AvrRxv effector in resistant tomato plants
hybridizationratioFDR (corrected p value)
10 h post inoculationN/AN/A

Experiment: Time course of DC3000 vs delta hrp on tomato Prf-3
hybridizationratioFDR (corrected p value)
DC3000/delat hrp 0h1.031180.921
DC3000/delta hrp 6h0.691150.783
DC3000/delta hrp 12h1.046611
DC3000/delta hrp 24h1.164480.728

Experiment: DC3000 effector mutants
hybridizationratioFDR (corrected p value)
DC3000 delta A/DC3000 delta ABN/AN/A
DC3000 delta B/DC3000 delta ABN/AN/A

Experiment: Matt's wild cherry tomato vs. Phytophthora infestans
hybridizationratioFDR (corrected p value)
Exp 12h0.859881
Exp 36h0.673350.406
Exp 60h0.881390.664

Experiment: Gene expression profiling of infection of tomato by Phytophthora infestans in the field
hybridizationratioFDR (corrected p value)
self-self0.915281
Var 0h1.102540.98
Var 12h I row2-row11.0496N/A
Var 12h NI row2-row11.000671
Var 36h I row2-row10.961011
Var 36h NI row2-row11.155461
Var 60h I row2-row11.03492N/A
Var 60h NI row2-row10.906540.361
Time course 0hI-0hNI1.037220.852
Time course 12hI-12hNI0.932050.347
Time course 36hI-36hNI0.913410.265
Time course 60hI-60hNI0.505510.006

Experiment: Transcriptional profiling of the tomato fruit pericarp tissue: fruits overexpressing yeast ySAMdc gene and controls
hybridizationratioFDR (corrected p value)
transgenic ySAMdc/azygous control (mature green)1.120880.325
transgenic ySAMdc/azygous control (breaker)0.964881
transgenic ySAMdc/azygous control (red)1.001931

Experiment: Tomato root culture and Al treatment
hybridizationratioFDR (corrected p value)
Al-treated/control0.986920.471

Experiment: Microarray Analysis on Salt Stress Affected Genes in Tomato Seedlings
hybridizationratioFDR (corrected p value)
salt-treated/no salt1.12040.277

Experiment: Transcriptional Profiling of high pigment-2dg Tomato Mutant Fruit
hybridizationratioFDR (corrected p value)
Manapal/WT (mature green)1.210910.105
Manapal/WT (break)1.107180.381
Manapal/WT (red)1.189891