Expression of 1-1-2.3.15.21

r value cutoff
Experiment: Wild type tomato fruit development (set 1)
hybridizationratioFDR (corrected p value)
17DAP/7DAP1.570580.588
27DAP/17DAP1.070730.853
39DAP/27DAP1.306540.825
41DAP/39DAP1.271480.545
42DAP/41DAP0.938471
43DAP/42DAP1.15310.875
47DAP/43DAP1.403310.216
52DAP/47DAP0.843270.587
57DAP/52DAP1.090620.955

Experiment: Wild type tomato fruit development (set 2)
hybridizationratioFDR (corrected p value)
7DAP/reference1.233660.062
17DAP/reference1.054670.606
27DAP/reference0.945120.457
39DAP/reference1.131750.057
41DAP/reference1.140520.265
42DAP/reference1.135420.08
43DAP/reference0.954340.36
47DAP/reference1.102890.419
52DAP/reference0.972270.33
57DAP/reference0.846760.078

Experiment: tomato Never-ripe mutant fruit development
hybridizationratioFDR (corrected p value)
17DAP/7DAP1.143330.699
27DAP/17DAP0.843360.537
39DAP/27DAP0.744340.064
41DAP/39DAP1.135990.896
42DAP/41DAP0.978910.795
43DAP/42DAP0.865260.256
47DAP/43DAP0.981280.919
52DAP/47DAP1.003540.979
57DAP/52DAP0.991360.841
57DAP/7DAP0.669771

Experiment: tomato rin mutant fruit development
hybridizationratioFDR (corrected p value)
7DAP/reference0.999980.758
17DAP/reference0.904310.031
27DAP/reference0.853640.012
39DAP/reference0.913940.049
41DAP/reference1.006991
42DAP/reference0.869870.023
43DAP/reference0.936620.023
47DAP/reference0.872580.101
52DAP/reference0.923660.115
57DAP/reference0.929220.061

Experiment: tomato nor mutant fruit development
hybridizationratioFDR (corrected p value)
7DAP/reference1.198020.304
17DAP/reference1.485280.016
27DAP/reference1.754530.014
39DAP/reference1.308640.035
41DAP/reference1.112920.335
42DAP/reference1.377110.022
43DAP/reference1.711140.055
47DAP/reference1.350220.015
52DAP/reference1.32160.016
57DAP/reference1.588990.007

Experiment: tomato hp1 mutant fruit development
hybridizationratioFDR (corrected p value)
7DAP/reference0.997240.804
17DAP/reference1.166980.456
27DAP/reference0.988390.691
39DAP/reference1.062190.691
41DAP/reference1.132970.777
42DAP/reference1.083590.961
43DAP/reference1.096410.744
47DAP/reference1.309850.03
52DAP/reference0.879330.184
57DAP/reference1.13860.233

Experiment: Wild type pepper fruit development
hybridizationratioFDR (corrected p value)
20DAP/14DAP1.526210.966
26DAP/20DAP1.385230.165
34DAP/26DAP1.149970.819
51DAP/34DAP1.371230.164
52DAP/51DAP1.103190.367
53DAP/52DAP1.089880.608
55DAP/53DAP1.061290.938
57DAP/55DAP0.861150.356
62DAP/57DAP1.018971
68DAP/62DAP1.042630.885
68DAP/14DAP0.531430.121

Experiment: Tomato (breaker-stage) vs. Pepper (breaker-stage)
hybridizationratioFDR (corrected p value)
Tomato Breaker/Pepper Breaker1.189040.264

Experiment: Solanaceae fruit comparison
hybridizationratioFDR (corrected p value)
Green Pepper/Ripe PepperN/AN/A
Mature Green Tomato/Ripe Tomato1.030420.774
Immature Eggplant/Mature EggplantN/AN/A
Ripe Pepper/Ripe Tomato0.22626
Mature Eggplant/Ripe Tomato0.08404

Experiment: IL carotenoid
hybridizationratioFDR (corrected p value)
11-1/M82N/AN/A
1-1-2/M822.11262
12-2/M82N/AN/A
12-4/M821.43509
1-3/M82N/AN/A
2-1-1/M82N/AN/A
2-1/M82N/AN/A
2-6/M82N/AN/A
3-2/M821.240420.382
4-1-1/M82N/AN/A
4-1/M822.099580.512
4-3-2/M82N/AN/A
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/M821.71786

Experiment: Tomato introgression line transcript analysis
hybridizationratioFDR (corrected p value)
IL4-4/WTpooled0.782250.243
IL2-6/WTpooled0.945360.473
IL7-5/WTpooledN/AN/A
IL7-3/WTpooled1.022951
IL12-4/WTpooled0.810350.566
IL1-4/WTpooled0.968711
WT/WTpooled0.964991

Experiment: Transcriptional changes determined by expression of the Xanthomonas AvrRxv effector in resistant tomato plants
hybridizationratioFDR (corrected p value)
10 h post inoculation0.963361

Experiment: Time course of DC3000 vs delta hrp on tomato Prf-3
hybridizationratioFDR (corrected p value)
DC3000/delat hrp 0h1.056590.921
DC3000/delta hrp 6h0.804690.71
DC3000/delta hrp 12h1.034211
DC3000/delta hrp 24h0.945060.818

Experiment: DC3000 effector mutants
hybridizationratioFDR (corrected p value)
DC3000 delta A/DC3000 delta AB0.913580.597
DC3000 delta B/DC3000 delta AB0.755510.022

Experiment: Matt's wild cherry tomato vs. Phytophthora infestans
hybridizationratioFDR (corrected p value)
Exp 12h1.023261
Exp 36h1.161311
Exp 60h1.105771

Experiment: Gene expression profiling of infection of tomato by Phytophthora infestans in the field
hybridizationratioFDR (corrected p value)
self-self0.987011
Var 0h0.94471
Var 12h I row2-row10.930390.705
Var 12h NI row2-row11.083940.649
Var 36h I row2-row11.224840.908
Var 36h NI row2-row11.20561
Var 60h I row2-row10.672710.287
Var 60h NI row2-row10.89660.63
Time course 0hI-0hNI0.8870.222
Time course 12hI-12hNI1.11530.373
Time course 36hI-36hNI1.248410.031
Time course 60hI-60hNI1.60050.008

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)0.909940.286
transgenic ySAMdc/azygous control (breaker)1.710040.248
transgenic ySAMdc/azygous control (red)1.372590.92

Experiment: Tomato root culture and Al treatment
hybridizationratioFDR (corrected p value)
Al-treated/control1.05720.073

Experiment: Microarray Analysis on Salt Stress Affected Genes in Tomato Seedlings
hybridizationratioFDR (corrected p value)
salt-treated/no salt1.429720.237

Experiment: Transcriptional Profiling of high pigment-2dg Tomato Mutant Fruit
hybridizationratioFDR (corrected p value)
Manapal/WT (mature green)0.773220.172
Manapal/WT (break)0.741580.333
Manapal/WT (red)0.946560.863