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Expression of 1-1-7.4.2.9

r value cutoff
Experiment: Wild type tomato fruit development (set 1)
hybridizationratioFDR (corrected p value)
17DAP/7DAP0.960630.683
27DAP/17DAP1.36340.688
39DAP/27DAP1.267380.833
41DAP/39DAP0.795770.291
42DAP/41DAP1.20190.898
43DAP/42DAP0.739960.697
47DAP/43DAP1.274880.442
52DAP/47DAP0.987960.908
57DAP/52DAP0.902350.89

Experiment: Wild type tomato fruit development (set 2)
hybridizationratioFDR (corrected p value)
7DAP/reference1.051630.522
17DAP/reference1.111390.055
27DAP/reference1.013110.953
39DAP/reference0.94740.342
41DAP/reference1.05630.241
42DAP/reference0.964540.202
43DAP/reference1.035890.287
47DAP/reference0.981610.473
52DAP/reference0.875430.046
57DAP/reference0.871550.016

Experiment: tomato Never-ripe mutant fruit development
hybridizationratioFDR (corrected p value)
17DAP/7DAP1.382480.151
27DAP/17DAP0.856490.648
39DAP/27DAP1.079080.659
41DAP/39DAP0.771010.169
42DAP/41DAP1.352160.301
43DAP/42DAP0.874220.269
47DAP/43DAP0.934130.687
52DAP/47DAP1.023661
57DAP/52DAP0.820310.379
57DAP/7DAP0.845751

Experiment: tomato rin mutant fruit development
hybridizationratioFDR (corrected p value)
7DAP/reference1.248850.36
17DAP/reference1.117750.754
27DAP/reference1.298930.023
39DAP/reference1.324620.027
41DAP/reference1.310270.126
42DAP/reference1.329180.024
43DAP/reference1.509510.037
47DAP/reference1.376170.493
52DAP/reference1.169280.563
57DAP/reference1.356650.004

Experiment: tomato nor mutant fruit development
hybridizationratioFDR (corrected p value)
7DAP/reference1.231510.11
17DAP/reference1.064970.658
27DAP/reference1.107470.288
39DAP/reference1.117250.309
41DAP/reference0.993180.57
42DAP/reference0.893750.15
43DAP/reference1.073770.462
47DAP/reference0.950680.292
52DAP/reference1.030510.498
57DAP/reference1.202930.229

Experiment: tomato hp1 mutant fruit development
hybridizationratioFDR (corrected p value)
7DAP/reference1.255480.28
17DAP/reference1.255640.306
27DAP/reference1.595060.029
39DAP/reference1.167160.227
41DAP/reference1.14510.357
42DAP/reference1.000450.816
43DAP/reference1.134520.555
47DAP/reference0.860910.033
52DAP/reference1.119580.614
57DAP/reference0.893450.234

Experiment: Wild type pepper fruit development
hybridizationratioFDR (corrected p value)
20DAP/14DAP1.122590.966
26DAP/20DAP0.85990.512
34DAP/26DAP1.38010.819
51DAP/34DAP0.863580.504
52DAP/51DAP1.030020.925
53DAP/52DAP0.754140.323
55DAP/53DAP1.005170.908
57DAP/55DAP0.868540.508
62DAP/57DAP1.015371
68DAP/62DAP0.892130.345
68DAP/14DAP0.961351

Experiment: Tomato (breaker-stage) vs. Pepper (breaker-stage)
hybridizationratioFDR (corrected p value)
Tomato Breaker/Pepper Breaker2.773860.018

Experiment: Solanaceae fruit comparison
hybridizationratioFDR (corrected p value)
Green Pepper/Ripe PepperN/AN/A
Mature Green Tomato/Ripe Tomato1.424660.185
Immature Eggplant/Mature EggplantN/AN/A
Ripe Pepper/Ripe Tomato0.049990.224
Mature Eggplant/Ripe Tomato0.034210.234

Experiment: IL carotenoid
hybridizationratioFDR (corrected p value)
11-1/M821.749060.877
1-1-2/M821.034051
12-2/M820.968751
12-4/M820.809651
1-3/M821.816320.277
2-1-1/M821.21402N/A
2-1/M821.441911
2-6/M820.655821
3-2/M821.665880.549
4-1-1/M821.145771
4-1/M820.862330.737
4-3-2/M820.982941
4-3/M821.967151
5-3/M820.935930.642
6-2/M821.571390.253
6-3/M821.0533N/A
7-1/M821.305920.598
7-2/M821.208871
9-3-2/M820.847570.449

Experiment: Tomato introgression line transcript analysis
hybridizationratioFDR (corrected p value)
IL4-4/WTpooledN/AN/A
IL2-6/WTpooled0.885471
IL7-5/WTpooledN/AN/A
IL7-3/WTpooled1.335861
IL12-4/WTpooled1.353050.516
IL1-4/WTpooled0.98189N/A
WT/WTpooled0.984551

Experiment: Transcriptional changes determined by expression of the Xanthomonas AvrRxv effector in resistant tomato plants
hybridizationratioFDR (corrected p value)
10 h post inoculation1.179260.853

Experiment: Time course of DC3000 vs delta hrp on tomato Prf-3
hybridizationratioFDR (corrected p value)
DC3000/delat hrp 0h1.171370.692
DC3000/delta hrp 6h0.752350.95
DC3000/delta hrp 12h0.919631
DC3000/delta hrp 24h0.98770.957

Experiment: DC3000 effector mutants
hybridizationratioFDR (corrected p value)
DC3000 delta A/DC3000 delta AB1.605510.355
DC3000 delta B/DC3000 delta AB1.16660.655

Experiment: Matt's wild cherry tomato vs. Phytophthora infestans
hybridizationratioFDR (corrected p value)
Exp 12h0.512630.24
Exp 36h1.618180.409
Exp 60h1.258470.563

Experiment: Gene expression profiling of infection of tomato by Phytophthora infestans in the field
hybridizationratioFDR (corrected p value)
self-self0.949121
Var 0h1.25452N/A
Var 12h I row2-row11.693990.473
Var 12h NI row2-row11.502491
Var 36h I row2-row10.652811
Var 36h NI row2-row11.449440.229
Var 60h I row2-row11.09441N/A
Var 60h NI row2-row11.581340.4
Time course 0hI-0hNI0.828160.087
Time course 12hI-12hNI1.241910.131
Time course 36hI-36hNI0.953170.45
Time course 60hI-60hNI0.673960.015

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)0.955780.454
transgenic ySAMdc/azygous control (breaker)0.673180.15
transgenic ySAMdc/azygous control (red)0.81631

Experiment: Tomato root culture and Al treatment
hybridizationratioFDR (corrected p value)
Al-treated/control0.917170.043

Experiment: Microarray Analysis on Salt Stress Affected Genes in Tomato Seedlings
hybridizationratioFDR (corrected p value)
salt-treated/no salt1.364020.277

Experiment: Transcriptional Profiling of high pigment-2dg Tomato Mutant Fruit
hybridizationratioFDR (corrected p value)
Manapal/WT (mature green)0.978811
Manapal/WT (break)0.670690.333
Manapal/WT (red)1.48530.413