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Expression of 1-1-1.3.3.12

r value cutoff
Experiment: Wild type tomato fruit development (set 1)
hybridizationratioFDR (corrected p value)
17DAP/7DAP0.955470.713
27DAP/17DAP1.117370.845
39DAP/27DAP1.250410.595
41DAP/39DAP1.064380.575
42DAP/41DAP1.214290.806
43DAP/42DAP0.885390.77
47DAP/43DAP0.860730.55
52DAP/47DAP1.385990.436
57DAP/52DAP0.920140.903

Experiment: Wild type tomato fruit development (set 2)
hybridizationratioFDR (corrected p value)
7DAP/reference1.230230.105
17DAP/reference1.170460.096
27DAP/reference1.15380.923
39DAP/reference1.402920.014
41DAP/reference1.889240.073
42DAP/reference1.228340.414
43DAP/reference0.483790.033
47DAP/reference1.250610.006
52DAP/reference1.47210.007
57DAP/referenceN/AN/A

Experiment: tomato Never-ripe mutant fruit development
hybridizationratioFDR (corrected p value)
17DAP/7DAP1.288480.132
27DAP/17DAP0.855450.312
39DAP/27DAP1.011311
41DAP/39DAP1.162220.799
42DAP/41DAP0.96750.695
43DAP/42DAP0.953430.447
47DAP/43DAP0.940210.687
52DAP/47DAP0.999850.979
57DAP/52DAP1.00590.926
57DAP/7DAP1.363550.23

Experiment: tomato rin mutant fruit development
hybridizationratioFDR (corrected p value)
7DAP/reference0.969890.495
17DAP/reference1.015440.437
27DAP/reference1.166270.014
39DAP/reference0.976920.264
41DAP/reference1.058080.767
42DAP/reference1.094860.076
43DAP/reference1.06320.226
47DAP/reference1.161440.187
52DAP/reference1.145920.031
57DAP/reference1.137560.043

Experiment: tomato nor mutant fruit development
hybridizationratioFDR (corrected p value)
7DAP/reference1.386620.097
17DAP/reference1.698110.026
27DAP/reference1.702560.013
39DAP/reference1.682690.011
41DAP/reference1.92010.005
42DAP/reference1.514540.009
43DAP/reference1.854130.01
47DAP/reference1.440440.008
52DAP/reference1.267950.368
57DAP/reference1.564080.017

Experiment: tomato hp1 mutant fruit development
hybridizationratioFDR (corrected p value)
7DAP/reference1.033031
17DAP/reference1.166180.394
27DAP/reference1.119870.312
39DAP/reference1.258560.296
41DAP/reference1.232370.411
42DAP/reference1.418230.054
43DAP/reference1.476560.139
47DAP/reference1.341920.01
52DAP/reference1.217570.091
57DAP/reference1.435270.02

Experiment: Wild type pepper fruit development
hybridizationratioFDR (corrected p value)
20DAP/14DAP0.976771
26DAP/20DAP0.894840.317
34DAP/26DAP1.022851
51DAP/34DAP0.971660.799
52DAP/51DAP0.984111
53DAP/52DAP0.977570.868
55DAP/53DAP1.046260.948
57DAP/55DAP0.916210.56
62DAP/57DAP0.979140.994
68DAP/62DAP0.624790.345
68DAP/14DAP0.64960.375

Experiment: Tomato (breaker-stage) vs. Pepper (breaker-stage)
hybridizationratioFDR (corrected p value)
Tomato Breaker/Pepper Breaker1.267340.036

Experiment: Solanaceae fruit comparison
hybridizationratioFDR (corrected p value)
Green Pepper/Ripe Pepper1.385490.059
Mature Green Tomato/Ripe Tomato1.364420.058
Immature Eggplant/Mature Eggplant0.800750.329
Ripe Pepper/Ripe Tomato0.719410.293
Mature Eggplant/Ripe Tomato0.685080.234

Experiment: IL carotenoid
hybridizationratioFDR (corrected p value)
11-1/M821.143820.591
1-1-2/M821.111981
12-2/M821.233481
12-4/M820.992531
1-3/M821.045391
2-1-1/M821.1663N/A
2-1/M820.71479N/A
2-6/M821.088280.364
3-2/M821.310860.717
4-1-1/M821.078970.902
4-1/M821.016911
4-3-2/M821.141990.253
4-3/M820.93007N/A
5-3/M820.950371
6-2/M820.999591
6-3/M820.926311
7-1/M82N/AN/A
7-2/M821.034421
9-3-2/M821.170221

Experiment: Tomato introgression line transcript analysis
hybridizationratioFDR (corrected p value)
IL4-4/WTpooled0.940590.247
IL2-6/WTpooledN/AN/A
IL7-5/WTpooled1.273750.792
IL7-3/WTpooledN/AN/A
IL12-4/WTpooled1.005951
IL1-4/WTpooled1.074931
WT/WTpooledN/AN/A

Experiment: Transcriptional changes determined by expression of the Xanthomonas AvrRxv effector in resistant tomato plants
hybridizationratioFDR (corrected p value)
10 h post inoculation1.156010.853

Experiment: Time course of DC3000 vs delta hrp on tomato Prf-3
hybridizationratioFDR (corrected p value)
DC3000/delat hrp 0h1.076270.921
DC3000/delta hrp 6h1.085311
DC3000/delta hrp 12h1.367841
DC3000/delta hrp 24h1.074490.535

Experiment: DC3000 effector mutants
hybridizationratioFDR (corrected p value)
DC3000 delta A/DC3000 delta AB0.89777N/A
DC3000 delta B/DC3000 delta AB0.974080.745

Experiment: Matt's wild cherry tomato vs. Phytophthora infestans
hybridizationratioFDR (corrected p value)
Exp 12h1.053891
Exp 36hN/AN/A
Exp 60h0.924220.754

Experiment: Gene expression profiling of infection of tomato by Phytophthora infestans in the field
hybridizationratioFDR (corrected p value)
self-self0.964371
Var 0h1.140570.936
Var 12h I row2-row11.145160.379
Var 12h NI row2-row11.114021
Var 36h I row2-row10.893990.438
Var 36h NI row2-row12.113921
Var 60h I row2-row11.027281
Var 60h NI row2-row11.038591
Time course 0hI-0hNI0.997291
Time course 12hI-12hNI0.998731
Time course 36hI-36hNI0.993470.665
Time course 60hI-60hNI1.285280.033

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)0.89440.315
transgenic ySAMdc/azygous control (breaker)0.841790.173
transgenic ySAMdc/azygous control (red)1.038781

Experiment: Tomato root culture and Al treatment
hybridizationratioFDR (corrected p value)
Al-treated/control0.949460.146

Experiment: Microarray Analysis on Salt Stress Affected Genes in Tomato Seedlings
hybridizationratioFDR (corrected p value)
salt-treated/no salt0.970530.789

Experiment: Transcriptional Profiling of high pigment-2dg Tomato Mutant Fruit
hybridizationratioFDR (corrected p value)
Manapal/WT (mature green)0.745320.172
Manapal/WT (break)0.935011
Manapal/WT (red)0.982010.728