Expression of 1-1-3.2.3.3

r value cutoff
Experiment: Wild type tomato fruit development (set 1)
hybridizationratioFDR (corrected p value)
17DAP/7DAP0.764760.427
27DAP/17DAP0.760250.635
39DAP/27DAP0.81640.353
41DAP/39DAP1.386230.483
42DAP/41DAP1.114331
43DAP/42DAP1.066350.937
47DAP/43DAP1.100670.999
52DAP/47DAP0.911570.709
57DAP/52DAP1.165161

Experiment: Wild type tomato fruit development (set 2)
hybridizationratioFDR (corrected p value)
7DAP/reference0.767920.089
17DAP/reference0.860990.147
27DAP/reference0.953030.668
39DAP/reference1.064680.871
41DAP/reference1.100271
42DAP/reference0.708340.043
43DAP/reference1.01324
47DAP/reference0.719230.019
52DAP/reference0.982760.636
57DAP/reference0.488420.221

Experiment: tomato Never-ripe mutant fruit development
hybridizationratioFDR (corrected p value)
17DAP/7DAP0.881580.442
27DAP/17DAP0.943930.854
39DAP/27DAP1.337260.174
41DAP/39DAP1.056650.909
42DAP/41DAP0.852820.52
43DAP/42DAP1.001420.991
47DAP/43DAP1.026360.973
52DAP/47DAP1.389720.402
57DAP/52DAP1.281950.23
57DAP/7DAP0.657210.219

Experiment: tomato rin mutant fruit development
hybridizationratioFDR (corrected p value)
7DAP/reference0.828370.146
17DAP/reference0.651860.064
27DAP/reference0.890480.231
39DAP/reference1.059930.552
41DAP/reference0.990650.565
42DAP/reference0.904830.32
43DAP/reference0.941190.44
47DAP/reference0.888660.168
52DAP/reference0.76970.019
57DAP/reference1.098360.907

Experiment: tomato nor mutant fruit development
hybridizationratioFDR (corrected p value)
7DAP/reference0.725040.115
17DAP/reference0.958720.499
27DAP/reference1.06160.648
39DAP/reference0.806150.091
41DAP/reference0.910250.194
42DAP/reference0.890060.261
43DAP/reference0.963910.539
47DAP/reference0.98140.527
52DAP/reference0.982570.537
57DAP/reference0.942520.488

Experiment: tomato hp1 mutant fruit development
hybridizationratioFDR (corrected p value)
7DAP/reference0.668550.057
17DAP/reference0.888370.537
27DAP/reference1.394540.248
39DAP/reference0.744060.328
41DAP/reference1.134230.257
42DAP/reference1.136950.175
43DAP/reference0.721530.043
47DAP/reference0.937120.371
52DAP/reference0.707030.166
57DAP/reference0.876130.247

Experiment: Wild type pepper fruit development
hybridizationratioFDR (corrected p value)
20DAP/14DAP1.44080.916
26DAP/20DAP1.550181
34DAP/26DAP1.863061
51DAP/34DAP0.864520.618
52DAP/51DAP1.005561
53DAP/52DAP1.134770.697
55DAP/53DAP1.13680.748
57DAP/55DAP0.991590.944
62DAP/57DAP1.314490.35
68DAP/62DAP1.18050.831
68DAP/14DAP0.594650.121

Experiment: Tomato (breaker-stage) vs. Pepper (breaker-stage)
hybridizationratioFDR (corrected p value)
Tomato Breaker/Pepper Breaker0.504180.019

Experiment: Solanaceae fruit comparison
hybridizationratioFDR (corrected p value)
Green Pepper/Ripe PepperN/AN/A
Mature Green Tomato/Ripe Tomato1.201470.774
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/M82N/AN/A
12-2/M82N/AN/A
12-4/M820.48114
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/M821.09748
4-3-2/M821.06337
4-3/M82N/AN/A
5-3/M82N/AN/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/WTpooled1.1020.365
IL2-6/WTpooled0.899690.358
IL7-5/WTpooled0.702051
IL7-3/WTpooled0.837340.418
IL12-4/WTpooled0.984611
IL1-4/WTpooled0.890790.415
WT/WTpooled1.012260.999

Experiment: Transcriptional changes determined by expression of the Xanthomonas AvrRxv effector in resistant tomato plants
hybridizationratioFDR (corrected p value)
10 h post inoculation0.954170.975

Experiment: Time course of DC3000 vs delta hrp on tomato Prf-3
hybridizationratioFDR (corrected p value)
DC3000/delat hrp 0h0.855360.941
DC3000/delta hrp 6h0.58494
DC3000/delta hrp 12h1.011981
DC3000/delta hrp 24h0.890540.28

Experiment: DC3000 effector mutants
hybridizationratioFDR (corrected p value)
DC3000 delta A/DC3000 delta AB1.58931
DC3000 delta B/DC3000 delta ABN/AN/A

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

Experiment: Gene expression profiling of infection of tomato by Phytophthora infestans in the field
hybridizationratioFDR (corrected p value)
self-self0.998491
Var 0h1.573560.421
Var 12h I row2-row10.899460.344
Var 12h NI row2-row11.107991
Var 36h I row2-row11.182990.489
Var 36h NI row2-row10.754210.25
Var 60h I row2-row10.872380.952
Var 60h NI row2-row10.771320.298
Time course 0hI-0hNI0.860470.11
Time course 12hI-12hNI1.009750.885
Time course 36hI-36hNI1.145030.401
Time course 60hI-60hNI1.067380.359

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)N/AN/A
transgenic ySAMdc/azygous control (breaker)3.472680.248
transgenic ySAMdc/azygous control (red)2.10070.92

Experiment: Tomato root culture and Al treatment
hybridizationratioFDR (corrected p value)
Al-treated/control0.977420.277

Experiment: Microarray Analysis on Salt Stress Affected Genes in Tomato Seedlings
hybridizationratioFDR (corrected p value)
salt-treated/no salt1.07191

Experiment: Transcriptional Profiling of high pigment-2dg Tomato Mutant Fruit
hybridizationratioFDR (corrected p value)
Manapal/WT (mature green)2.165110.105
Manapal/WT (break)1.559850.183
Manapal/WT (red)1.345310.164