Expression of 1-1-1.1.12.5

r value cutoff
Experiment: Wild type tomato fruit development (set 1)
hybridizationratioFDR (corrected p value)
17DAP/7DAP1.023570.977
27DAP/17DAP1.268440.842
39DAP/27DAP0.873340.529
41DAP/39DAP0.902750.602
42DAP/41DAP1.202960.752
43DAP/42DAP1.292740.505
47DAP/43DAP1.178010.448
52DAP/47DAP1.215010.624
57DAP/52DAP1.360580.354

Experiment: Wild type tomato fruit development (set 2)
hybridizationratioFDR (corrected p value)
7DAP/reference0.972820.55
17DAP/reference1.088140.442
27DAP/reference1.15020.098
39DAP/reference1.200570.393
41DAP/reference1.085950.667
42DAP/reference0.947920.25
43DAP/reference0.955370.576
47DAP/reference1.07180.627
52DAP/reference0.909440.267
57DAP/reference0.827370.056

Experiment: tomato Never-ripe mutant fruit development
hybridizationratioFDR (corrected p value)
17DAP/7DAP1.078490.797
27DAP/17DAP0.995590.943
39DAP/27DAP1.046970.707
41DAP/39DAP0.952550.849
42DAP/41DAP1.101740.622
43DAP/42DAP0.797660.049
47DAP/43DAP0.970150.861
52DAP/47DAP1.985660.048
57DAP/52DAP1.840190.036
57DAP/7DAP0.304291

Experiment: tomato rin mutant fruit development
hybridizationratioFDR (corrected p value)
7DAP/reference1.144310.427
17DAP/reference0.980810.518
27DAP/reference1.104230.453
39DAP/reference1.075510.74
41DAP/reference1.009880.619
42DAP/reference0.957960.415
43DAP/reference1.119450.093
47DAP/reference1.174770.195
52DAP/reference1.05540.732
57DAP/reference1.102840.214

Experiment: tomato nor mutant fruit development
hybridizationratioFDR (corrected p value)
7DAP/reference1.097690.325
17DAP/reference1.507090.037
27DAP/reference1.068220.847
39DAP/reference1.190070.588
41DAP/reference0.866090.064
42DAP/reference0.908630.289
43DAP/reference0.987810.692
47DAP/reference1.125610.112
52DAP/reference0.989340.666
57DAP/reference1.003510.789

Experiment: tomato hp1 mutant fruit development
hybridizationratioFDR (corrected p value)
7DAP/reference1.421240.02
17DAP/reference1.050260.792
27DAP/reference0.923360.319
39DAP/reference1.104660.084
41DAP/reference1.009381
42DAP/reference1.073030.529
43DAP/reference1.058080.721
47DAP/reference1.037951
52DAP/reference1.280250.1
57DAP/reference0.993460.693

Experiment: Wild type pepper fruit development
hybridizationratioFDR (corrected p value)
20DAP/14DAP1.07368
26DAP/20DAP1.20741
34DAP/26DAP1.499221
51DAP/34DAP0.944420.64
52DAP/51DAP2.246430.071
53DAP/52DAP0.863290.259
55DAP/53DAP1.733460.208
57DAP/55DAP0.748230.162
62DAP/57DAP0.992881
68DAP/62DAP1.203560.977
68DAP/14DAPN/AN/A

Experiment: Tomato (breaker-stage) vs. Pepper (breaker-stage)
hybridizationratioFDR (corrected p value)
Tomato Breaker/Pepper Breaker0.372140.02

Experiment: Solanaceae fruit comparison
hybridizationratioFDR (corrected p value)
Green Pepper/Ripe Pepper0.983210.826
Mature Green Tomato/Ripe Tomato1.60960.086
Immature Eggplant/Mature Eggplant0.47660.144
Ripe Pepper/Ripe Tomato4.804280.251
Mature Eggplant/Ripe Tomato1.877940.373

Experiment: IL carotenoid
hybridizationratioFDR (corrected p value)
11-1/M820.910340.944
1-1-2/M821.01711
12-2/M820.49427
12-4/M820.845990.33
1-3/M820.751730.378
2-1-1/M821.092960.689
2-1/M82N/AN/A
2-6/M821.099110.594
3-2/M820.79821
4-1-1/M821.47889
4-1/M821.15501
4-3-2/M82N/AN/A
4-3/M821.10011
5-3/M821.047791
6-2/M820.92816
6-3/M821.129011
7-1/M820.93309
7-2/M820.873640.796
9-3-2/M82N/AN/A

Experiment: Tomato introgression line transcript analysis
hybridizationratioFDR (corrected p value)
IL4-4/WTpooled1.067860.493
IL2-6/WTpooled1.029561
IL7-5/WTpooled0.77765
IL7-3/WTpooled1.093581
IL12-4/WTpooled0.754250.71
IL1-4/WTpooled1.024031
WT/WTpooled0.876811

Experiment: Transcriptional changes determined by expression of the Xanthomonas AvrRxv effector in resistant tomato plants
hybridizationratioFDR (corrected p value)
10 h post inoculation1.025891

Experiment: Time course of DC3000 vs delta hrp on tomato Prf-3
hybridizationratioFDR (corrected p value)
DC3000/delat hrp 0h1.106480.758
DC3000/delta hrp 6h0.612640.942
DC3000/delta hrp 12h1.042751
DC3000/delta hrp 24h1.165070.264

Experiment: DC3000 effector mutants
hybridizationratioFDR (corrected p value)
DC3000 delta A/DC3000 delta AB1.29110.087
DC3000 delta B/DC3000 delta AB0.91270.497

Experiment: Matt's wild cherry tomato vs. Phytophthora infestans
hybridizationratioFDR (corrected p value)
Exp 12h0.976981
Exp 36h0.552660.374
Exp 60h0.89510.664

Experiment: Gene expression profiling of infection of tomato by Phytophthora infestans in the field
hybridizationratioFDR (corrected p value)
self-self1.002571
Var 0h0.866251
Var 12h I row2-row10.750080.418
Var 12h NI row2-row10.827620.546
Var 36h I row2-row11.026871
Var 36h NI row2-row10.856760.549
Var 60h I row2-row11.150161
Var 60h NI row2-row10.991211
Time course 0hI-0hNI1.007050.867
Time course 12hI-12hNI0.934070.375
Time course 36hI-36hNI0.824410.023
Time course 60hI-60hNI0.525820.006

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)0.886130.286
transgenic ySAMdc/azygous control (breaker)0.857890.173
transgenic ySAMdc/azygous control (red)0.875561

Experiment: Tomato root culture and Al treatment
hybridizationratioFDR (corrected p value)
Al-treated/control1.051540.177

Experiment: Microarray Analysis on Salt Stress Affected Genes in Tomato Seedlings
hybridizationratioFDR (corrected p value)
salt-treated/no salt0.982330.789

Experiment: Transcriptional Profiling of high pigment-2dg Tomato Mutant Fruit
hybridizationratioFDR (corrected p value)
Manapal/WT (mature green)0.759810.172
Manapal/WT (break)0.927181
Manapal/WT (red)1.39790.133