Expression of 1-1-3.1.1.12

r value cutoff
Experiment: Wild type tomato fruit development (set 1)
hybridizationratioFDR (corrected p value)
17DAP/7DAP1.152260.681
27DAP/17DAP0.78460.403
39DAP/27DAP1.671950.256
41DAP/39DAP0.512640.042
42DAP/41DAP1.026061
43DAP/42DAP0.981660.912
47DAP/43DAP0.733490.263
52DAP/47DAP0.966760.88
57DAP/52DAP1.591380.638

Experiment: Wild type tomato fruit development (set 2)
hybridizationratioFDR (corrected p value)
7DAP/reference1.416870.007
17DAP/reference1.336730.019
27DAP/reference1.346230.015
39DAP/reference1.10610.504
41DAP/reference0.980050.667
42DAP/reference1.429120.001
43DAP/reference1.152090.053
47DAP/reference1.174380.004
52DAP/reference1.084340.84
57DAP/reference1.213170.021

Experiment: tomato Never-ripe mutant fruit development
hybridizationratioFDR (corrected p value)
17DAP/7DAP1.635260.036
27DAP/17DAP0.977550.821
39DAP/27DAP0.767980.051
41DAP/39DAP1.254550.748
42DAP/41DAP0.933890.511
43DAP/42DAP0.639320.022
47DAP/43DAP0.929380.395
52DAP/47DAP0.845520.254
57DAP/52DAP0.950540.622
57DAP/7DAP0.77841

Experiment: tomato rin mutant fruit development
hybridizationratioFDR (corrected p value)
7DAP/reference1.82460.025
17DAP/reference2.045360.006
27DAP/reference2.22480.006
39DAP/reference2.223420.005
41DAP/reference2.077910.008
42DAP/reference2.235680.006
43DAP/reference1.684260.007
47DAP/reference1.718610.014
52DAP/reference2.251070.007
57DAP/reference1.876130.004

Experiment: tomato nor mutant fruit development
hybridizationratioFDR (corrected p value)
7DAP/reference1.06940.832
17DAP/reference1.679710.015
27DAP/reference2.079310.013
39DAP/reference1.873080.011
41DAP/reference1.720810.005
42DAP/reference1.774770.011
43DAP/reference1.384740.211
47DAP/reference1.505770.018
52DAP/reference1.18610.026
57DAP/reference1.07480.827

Experiment: tomato hp1 mutant fruit development
hybridizationratioFDR (corrected p value)
7DAP/reference1.399460.025
17DAP/reference1.213820.241
27DAP/reference1.705650.016
39DAP/reference1.865450.005
41DAP/reference1.664010.007
42DAP/reference1.881260.007
43DAP/reference1.893140.012
47DAP/reference0.953730.421
52DAP/reference1.498020.06
57DAP/reference1.814610.02

Experiment: Wild type pepper fruit development
hybridizationratioFDR (corrected p value)
20DAP/14DAP0.91470.981
26DAP/20DAP1.493980.338
34DAP/26DAP1.083131
51DAP/34DAP0.544110.116
52DAP/51DAP1.033380.904
53DAP/52DAP0.918830.807
55DAP/53DAP0.877490.53
57DAP/55DAP0.847580.688
62DAP/57DAP1.445680.8
68DAP/62DAP1.765280.17
68DAP/14DAP2.580160.041

Experiment: Tomato (breaker-stage) vs. Pepper (breaker-stage)
hybridizationratioFDR (corrected p value)
Tomato Breaker/Pepper Breaker3.791080.014

Experiment: Solanaceae fruit comparison
hybridizationratioFDR (corrected p value)
Green Pepper/Ripe Pepper1.637580.058
Mature Green Tomato/Ripe Tomato1.58920.021
Immature Eggplant/Mature Eggplant1.022540.439
Ripe Pepper/Ripe Tomato0.680040.224
Mature Eggplant/Ripe Tomato0.550730.234

Experiment: IL carotenoid
hybridizationratioFDR (corrected p value)
11-1/M820.954390.944
1-1-2/M82N/AN/A
12-2/M820.907390.955
12-4/M821.107831
1-3/M822.277720.248
2-1-1/M821.050581
2-1/M820.71050.74
2-6/M821.02011
3-2/M821.005981
4-1-1/M821.273621
4-1/M820.68882
4-3-2/M821.666670.241
4-3/M821.504710.268
5-3/M821.18280.467
6-2/M82N/AN/A
6-3/M820.601680.857
7-1/M820.875010.803
7-2/M821.505110.385
9-3-2/M821.330621

Experiment: Tomato introgression line transcript analysis
hybridizationratioFDR (corrected p value)
IL4-4/WTpooled1.124330.493
IL2-6/WTpooled1.24810.659
IL7-5/WTpooled0.732650.25
IL7-3/WTpooled1.23595
IL12-4/WTpooled0.973411
IL1-4/WTpooled1.007411
WT/WTpooled0.921361

Experiment: Transcriptional changes determined by expression of the Xanthomonas AvrRxv effector in resistant tomato plants
hybridizationratioFDR (corrected p value)
10 h post inoculation0.963951

Experiment: Time course of DC3000 vs delta hrp on tomato Prf-3
hybridizationratioFDR (corrected p value)
DC3000/delat hrp 0h1.101440.692
DC3000/delta hrp 6h0.986210.95
DC3000/delta hrp 12h1.101681
DC3000/delta hrp 24h0.872130.264

Experiment: DC3000 effector mutants
hybridizationratioFDR (corrected p value)
DC3000 delta A/DC3000 delta AB1.107450.355
DC3000 delta B/DC3000 delta AB1.149370.321

Experiment: Matt's wild cherry tomato vs. Phytophthora infestans
hybridizationratioFDR (corrected p value)
Exp 12h0.982981
Exp 36h1.115621
Exp 60h0.884930.754

Experiment: Gene expression profiling of infection of tomato by Phytophthora infestans in the field
hybridizationratioFDR (corrected p value)
self-self1.006261
Var 0h0.942231
Var 12h I row2-row10.919110.77
Var 12h NI row2-row11.310070.649
Var 36h I row2-row11.090210.601
Var 36h NI row2-row10.853180.61
Var 60h I row2-row10.973871
Var 60h NI row2-row10.788960.38
Time course 0hI-0hNI0.851590.102
Time course 12hI-12hNI0.984010.893
Time course 36hI-36hNI1.292140.248
Time course 60hI-60hNI1.350260.033

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)1.073380.397
transgenic ySAMdc/azygous control (breaker)1.011251
transgenic ySAMdc/azygous control (red)1.173610.92

Experiment: Tomato root culture and Al treatment
hybridizationratioFDR (corrected p value)
Al-treated/control1.597180.036

Experiment: Microarray Analysis on Salt Stress Affected Genes in Tomato Seedlings
hybridizationratioFDR (corrected p value)
salt-treated/no salt0.894250.284

Experiment: Transcriptional Profiling of high pigment-2dg Tomato Mutant Fruit
hybridizationratioFDR (corrected p value)
Manapal/WT (mature green)0.876641
Manapal/WT (break)0.986761
Manapal/WT (red)1.104760.222