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Expression of 1-1-2.4.14.12

r value cutoff
Experiment: Wild type tomato fruit development (set 1)
hybridizationratioFDR (corrected p value)
17DAP/7DAP0.873060.389
27DAP/17DAP0.95820.899
39DAP/27DAP1.36540.123
41DAP/39DAP0.725640.147
42DAP/41DAP1.117120.908
43DAP/42DAP1.071911
47DAP/43DAP0.828920.48
52DAP/47DAP0.869590.612
57DAP/52DAP1.247720.533

Experiment: Wild type tomato fruit development (set 2)
hybridizationratioFDR (corrected p value)
7DAP/reference1.508560.011
17DAP/reference1.351260.048
27DAP/reference1.128840.264
39DAP/reference1.222730.029
41DAP/reference1.102620.552
42DAP/reference1.73080.001
43DAP/reference1.088610.325
47DAP/reference1.418180.001
52DAP/reference1.055640.73
57DAP/reference1.240110.054

Experiment: tomato Never-ripe mutant fruit development
hybridizationratioFDR (corrected p value)
17DAP/7DAP1.351390.055
27DAP/17DAP0.868380.179
39DAP/27DAP0.871380.093
41DAP/39DAP1.134160.705
42DAP/41DAP1.036920.836
43DAP/42DAP0.833820.024
47DAP/43DAP1.036020.822
52DAP/47DAP0.78680.064
57DAP/52DAP1.092690.864
57DAP/7DAP0.812461

Experiment: tomato rin mutant fruit development
hybridizationratioFDR (corrected p value)
7DAP/reference1.54150.025
17DAP/reference1.569620.007
27DAP/reference1.340410.01
39DAP/reference1.579660.006
41DAP/reference1.447670.008
42DAP/reference1.545020.014
43DAP/reference1.227480.013
47DAP/reference1.526540.025
52DAP/reference1.746860.01
57DAP/reference1.759110.01

Experiment: tomato nor mutant fruit development
hybridizationratioFDR (corrected p value)
7DAP/reference1.353960.249
17DAP/reference2.212020.008
27DAP/reference1.937270.029
39DAP/reference1.977730.011
41DAP/reference2.012760.006
42DAP/reference2.104260.007
43DAP/reference1.419150.247
47DAP/reference1.945110.008
52DAP/reference1.18180.024
57DAP/reference1.476660.123

Experiment: tomato hp1 mutant fruit development
hybridizationratioFDR (corrected p value)
7DAP/reference1.326350.02
17DAP/reference1.334090.112
27DAP/reference1.230390.017
39DAP/reference1.425240.005
41DAP/reference1.355360.02
42DAP/reference1.502020.014
43DAP/reference1.783480.031
47DAP/reference1.243780.042
52DAP/reference1.330930.225
57DAP/reference1.431160.077

Experiment: Wild type pepper fruit development
hybridizationratioFDR (corrected p value)
20DAP/14DAP1.27470.966
26DAP/20DAP1.910280.137
34DAP/26DAP1.10451
51DAP/34DAP0.782260.174
52DAP/51DAP0.860530.151
53DAP/52DAP0.91950.703
55DAP/53DAP0.74860.025
57DAP/55DAP1.455290.049
62DAP/57DAP0.926970.681
68DAP/62DAP0.728640.177
68DAP/14DAP0.956291

Experiment: Tomato (breaker-stage) vs. Pepper (breaker-stage)
hybridizationratioFDR (corrected p value)
Tomato Breaker/Pepper Breaker2.02630.014

Experiment: Solanaceae fruit comparison
hybridizationratioFDR (corrected p value)
Green Pepper/Ripe Pepper1.014781
Mature Green Tomato/Ripe Tomato1.154460.048
Immature Eggplant/Mature Eggplant1.167630.157
Ripe Pepper/Ripe Tomato0.898071
Mature Eggplant/Ripe Tomato1.22420.373

Experiment: IL carotenoid
hybridizationratioFDR (corrected p value)
11-1/M82N/AN/A
1-1-2/M820.919021
12-2/M82N/AN/A
12-4/M820.82135N/A
1-3/M822.24207N/A
2-1-1/M820.861320.784
2-1/M82N/AN/A
2-6/M82N/AN/A
3-2/M820.99486N/A
4-1-1/M820.62726N/A
4-1/M821.3522N/A
4-3-2/M82N/AN/A
4-3/M821.290551
5-3/M821.324140.572
6-2/M821.11647N/A
6-3/M82N/AN/A
7-1/M820.918071
7-2/M82N/AN/A
9-3-2/M821.291911

Experiment: Tomato introgression line transcript analysis
hybridizationratioFDR (corrected p value)
IL4-4/WTpooled1.456720.254
IL2-6/WTpooled0.889180.348
IL7-5/WTpooled1.260940.67
IL7-3/WTpooled1.517951
IL12-4/WTpooled1.234970.557
IL1-4/WTpooled1.290321
WT/WTpooled0.984541

Experiment: Transcriptional changes determined by expression of the Xanthomonas AvrRxv effector in resistant tomato plants
hybridizationratioFDR (corrected p value)
10 h post inoculation1.017141

Experiment: Time course of DC3000 vs delta hrp on tomato Prf-3
hybridizationratioFDR (corrected p value)
DC3000/delat hrp 0h1.071370.921
DC3000/delta hrp 6h0.987150.95
DC3000/delta hrp 12h1.231741
DC3000/delta hrp 24h1.06450.69

Experiment: DC3000 effector mutants
hybridizationratioFDR (corrected p value)
DC3000 delta A/DC3000 delta AB1.042370.515
DC3000 delta B/DC3000 delta AB1.187780.181

Experiment: Matt's wild cherry tomato vs. Phytophthora infestans
hybridizationratioFDR (corrected p value)
Exp 12h1.036971
Exp 36h1.302851
Exp 60h1.080191

Experiment: Gene expression profiling of infection of tomato by Phytophthora infestans in the field
hybridizationratioFDR (corrected p value)
self-self0.852921
Var 0h0.924810.933
Var 12h I row2-row10.994931
Var 12h NI row2-row11.012911
Var 36h I row2-row11.213030.489
Var 36h NI row2-row10.605820.258
Var 60h I row2-row10.956720.952
Var 60h NI row2-row10.773920.301
Time course 0hI-0hNI0.894230.133
Time course 12hI-12hNI1.086480.143
Time course 36hI-36hNI1.297910.128
Time course 60hI-60hNI1.663190.008

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)1.01750.748
transgenic ySAMdc/azygous control (breaker)1.133271
transgenic ySAMdc/azygous control (red)1.144530.92

Experiment: Tomato root culture and Al treatment
hybridizationratioFDR (corrected p value)
Al-treated/control1.05070.525

Experiment: Microarray Analysis on Salt Stress Affected Genes in Tomato Seedlings
hybridizationratioFDR (corrected p value)
salt-treated/no salt0.936350.35

Experiment: Transcriptional Profiling of high pigment-2dg Tomato Mutant Fruit
hybridizationratioFDR (corrected p value)
Manapal/WT (mature green)0.862351
Manapal/WT (break)0.993621
Manapal/WT (red)1.514930.134