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Expression of 1-1-2.4.12.20

r value cutoff
Experiment: Wild type tomato fruit development (set 1)
hybridizationratioFDR (corrected p value)
17DAP/7DAP0.749610.206
27DAP/17DAP1.734740.402
39DAP/27DAP1.066190.972
41DAP/39DAP0.929640.675
42DAP/41DAP1.723530.745
43DAP/42DAP1.168770.736
47DAP/43DAP1.109160.618
52DAP/47DAP0.879540.677
57DAP/52DAP1.108740.912

Experiment: Wild type tomato fruit development (set 2)
hybridizationratioFDR (corrected p value)
7DAP/reference1.762650.013
17DAP/reference0.698280.025
27DAP/reference0.774760.061
39DAP/reference0.863460.17
41DAP/reference0.734130.014
42DAP/reference1.298890.002
43DAP/reference1.138220.142
47DAP/reference2.648450.001
52DAP/reference2.385340.007
57DAP/reference2.102770.008

Experiment: tomato Never-ripe mutant fruit development
hybridizationratioFDR (corrected p value)
17DAP/7DAP1.255850.326
27DAP/17DAP0.837830.614
39DAP/27DAP0.952030.768
41DAP/39DAP0.946770.893
42DAP/41DAP0.945580.583
43DAP/42DAP1.12170.788
47DAP/43DAP0.947620.855
52DAP/47DAP1.008980.951
57DAP/52DAP5.587830.455
57DAP/7DAP1.000051

Experiment: tomato rin mutant fruit development
hybridizationratioFDR (corrected p value)
7DAP/reference0.933850.326
17DAP/reference0.655180.013
27DAP/reference0.750740.031
39DAP/reference0.81730.011
41DAP/reference0.720050.02
42DAP/reference0.612190.01
43DAP/reference0.851910.056
47DAP/reference1.074340.932
52DAP/reference1.010710.74
57DAP/reference0.988520.53

Experiment: tomato nor mutant fruit development
hybridizationratioFDR (corrected p value)
7DAP/reference1.141580.491
17DAP/reference0.95040.447
27DAP/reference0.888170.15
39DAP/reference0.994010.586
41DAP/reference0.810270.015
42DAP/reference1.083910.294
43DAP/reference0.864510.277
47DAP/reference1.195510.12
52DAP/reference0.605440.004
57DAP/reference0.757120.008

Experiment: tomato hp1 mutant fruit development
hybridizationratioFDR (corrected p value)
7DAP/reference1.005240.699
17DAP/reference0.815050.144
27DAP/reference0.843610.133
39DAP/reference0.816650.083
41DAP/reference0.930940.237
42DAP/reference1.341510.057
43DAP/reference1.075040.71
47DAP/reference1.290380.133
52DAP/reference0.847060.284
57DAP/reference2.733320.011

Experiment: Wild type pepper fruit development
hybridizationratioFDR (corrected p value)
20DAP/14DAP0.964791
26DAP/20DAP1.041411
34DAP/26DAP0.831180.531
51DAP/34DAP0.999820.893
52DAP/51DAP1.124460.873
53DAP/52DAP1.043220.944
55DAP/53DAP1.229170.696
57DAP/55DAP1.061370.955
62DAP/57DAP0.881520.681
68DAP/62DAP0.634040.166
68DAP/14DAP0.543860.375

Experiment: Tomato (breaker-stage) vs. Pepper (breaker-stage)
hybridizationratioFDR (corrected p value)
Tomato Breaker/Pepper Breaker0.932220.399

Experiment: Solanaceae fruit comparison
hybridizationratioFDR (corrected p value)
Green Pepper/Ripe Pepper1.556360.058
Mature Green Tomato/Ripe Tomato1.749260.095
Immature Eggplant/Mature Eggplant1.431030.05
Ripe Pepper/Ripe Tomato0.54040.224
Mature Eggplant/Ripe Tomato0.459320.234

Experiment: IL carotenoid
hybridizationratioFDR (corrected p value)
11-1/M820.994811
1-1-2/M821.136341
12-2/M820.846580.74
12-4/M820.846031
1-3/M821.836660.277
2-1-1/M820.94910.92
2-1/M820.780080.74
2-6/M821.051811
3-2/M820.973911
4-1-1/M821.015811
4-1/M82N/AN/A
4-3-2/M82N/AN/A
4-3/M821.061211
5-3/M821.047211
6-2/M820.860921
6-3/M821.116151
7-1/M821.32022N/A
7-2/M821.0346N/A
9-3-2/M822.50507N/A

Experiment: Tomato introgression line transcript analysis
hybridizationratioFDR (corrected p value)
IL4-4/WTpooled0.632050.243
IL2-6/WTpooled2.686740.395
IL7-5/WTpooled1.377330.792
IL7-3/WTpooled0.856130.418
IL12-4/WTpooled0.733640.554
IL1-4/WTpooled0.883850.476
WT/WTpooled0.987841

Experiment: Transcriptional changes determined by expression of the Xanthomonas AvrRxv effector in resistant tomato plants
hybridizationratioFDR (corrected p value)
10 h post inoculation1.43040.853

Experiment: Time course of DC3000 vs delta hrp on tomato Prf-3
hybridizationratioFDR (corrected p value)
DC3000/delat hrp 0h1.05710.846
DC3000/delta hrp 6h0.960850.95
DC3000/delta hrp 12h1.113091
DC3000/delta hrp 24h0.907250.395

Experiment: DC3000 effector mutants
hybridizationratioFDR (corrected p value)
DC3000 delta A/DC3000 delta AB2.22219N/A
DC3000 delta B/DC3000 delta AB1.31406N/A

Experiment: Matt's wild cherry tomato vs. Phytophthora infestans
hybridizationratioFDR (corrected p value)
Exp 12h1.126661
Exp 36h0.879320.82
Exp 60h0.947570.855

Experiment: Gene expression profiling of infection of tomato by Phytophthora infestans in the field
hybridizationratioFDR (corrected p value)
self-self0.96391
Var 0h0.97121
Var 12h I row2-row10.881070.514
Var 12h NI row2-row10.89580.713
Var 36h I row2-row11.024481
Var 36h NI row2-row11.023421
Var 60h I row2-row10.857610.582
Var 60h NI row2-row10.951171
Time course 0hI-0hNI1.149620.764
Time course 12hI-12hNI0.895650.426
Time course 36hI-36hNI1.170040.028
Time course 60hI-60hNI2.477050.008

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)0.765650.254
transgenic ySAMdc/azygous control (breaker)0.800510.251
transgenic ySAMdc/azygous control (red)1.007361

Experiment: Tomato root culture and Al treatment
hybridizationratioFDR (corrected p value)
Al-treated/control1.398850.059

Experiment: Microarray Analysis on Salt Stress Affected Genes in Tomato Seedlings
hybridizationratioFDR (corrected p value)
salt-treated/no salt0.869740.238

Experiment: Transcriptional Profiling of high pigment-2dg Tomato Mutant Fruit
hybridizationratioFDR (corrected p value)
Manapal/WT (mature green)1.253660.088
Manapal/WT (break)1.064891
Manapal/WT (red)0.96640.503