Expression of 1-1-1.1.1.2

r value cutoff
Experiment: Wild type tomato fruit development (set 1)
hybridizationratioFDR (corrected p value)
17DAP/7DAP1.219280.786
27DAP/17DAP0.806380.49
39DAP/27DAP1.073180.961
41DAP/39DAP1.173470.722
42DAP/41DAP1.397380.488
43DAP/42DAP1.158020.861
47DAP/43DAP0.737290.274
52DAP/47DAP1.385190.516
57DAP/52DAP0.696550.462

Experiment: Wild type tomato fruit development (set 2)
hybridizationratioFDR (corrected p value)
7DAP/reference1.724870.008
17DAP/reference1.307780.059
27DAP/reference1.190770.357
39DAP/reference1.098690.203
41DAP/reference1.111230.808
42DAP/reference1.351160.022
43DAP/reference1.054610.942
47DAP/reference0.881740.137
52DAP/reference0.913730.237
57DAP/reference0.919030.308

Experiment: tomato Never-ripe mutant fruit development
hybridizationratioFDR (corrected p value)
17DAP/7DAP0.937730.311
27DAP/17DAP1.18110.523
39DAP/27DAP0.820080.102
41DAP/39DAP0.902710.333
42DAP/41DAP1.006790.887
43DAP/42DAP1.287420.072
47DAP/43DAP1.003990.973
52DAP/47DAP0.90090.35
57DAP/52DAP1.166340.457
57DAP/7DAP2.197890.249

Experiment: tomato rin mutant fruit development
hybridizationratioFDR (corrected p value)
7DAP/reference1.243550.088
17DAP/reference1.054061
27DAP/reference0.905880.146
39DAP/reference1.076171
41DAP/reference0.918990.357
42DAP/reference1.313790.686
43DAP/reference1.252950.212
47DAP/reference1.227030.279
52DAP/reference1.076640.563
57DAP/reference1.052050.799

Experiment: tomato nor mutant fruit development
hybridizationratioFDR (corrected p value)
7DAP/reference1.346660.516
17DAP/reference2.45510.022
27DAP/reference1.221170.156
39DAP/reference1.090290.346
41DAP/reference1.215980.126
42DAP/reference1.261950.596
43DAP/reference1.213990.373
47DAP/reference1.364330.074
52DAP/reference1.41030.016
57DAP/reference1.400050.398

Experiment: tomato hp1 mutant fruit development
hybridizationratioFDR (corrected p value)
7DAP/reference1.160740.196
17DAP/reference1.401850.326
27DAP/reference1.278780.03
39DAP/reference1.15350.546
41DAP/reference0.874610.293
42DAP/reference1.12040.848
43DAP/reference1.013660.858
47DAP/reference1.664130.007
52DAP/reference2.22020.483
57DAP/reference3.029780.027

Experiment: Wild type pepper fruit development
hybridizationratioFDR (corrected p value)
20DAP/14DAP2.21114
26DAP/20DAP0.831560.244
34DAP/26DAP1.078441
51DAP/34DAP0.849440.317
52DAP/51DAP1.271480.454
53DAP/52DAP1.08150.688
55DAP/53DAP1.595780.576
57DAP/55DAP0.902990.804
62DAP/57DAP1.207150.006
68DAP/62DAP1.002740.939
68DAP/14DAP1.715050.594

Experiment: Tomato (breaker-stage) vs. Pepper (breaker-stage)
hybridizationratioFDR (corrected p value)
Tomato Breaker/Pepper Breaker1.07391

Experiment: Solanaceae fruit comparison
hybridizationratioFDR (corrected p value)
Green Pepper/Ripe Pepper1.039420.666
Mature Green Tomato/Ripe Tomato1.536470.185
Immature Eggplant/Mature Eggplant0.991981
Ripe Pepper/Ripe Tomato0.803311
Mature Eggplant/Ripe Tomato1.021811

Experiment: IL carotenoid
hybridizationratioFDR (corrected p value)
11-1/M820.928010.961
1-1-2/M821.612961
12-2/M820.90159
12-4/M820.928091
1-3/M820.88543
2-1-1/M821.66219
2-1/M82N/AN/A
2-6/M820.940781
3-2/M82N/AN/A
4-1-1/M821.28788
4-1/M82N/AN/A
4-3-2/M82N/AN/A
4-3/M820.787030.72
5-3/M820.965171
6-2/M82N/AN/A
6-3/M821.078361
7-1/M821.35261
7-2/M820.82860.881
9-3-2/M82N/AN/A

Experiment: Tomato introgression line transcript analysis
hybridizationratioFDR (corrected p value)
IL4-4/WTpooled1.018560.493
IL2-6/WTpooled1.217010.419
IL7-5/WTpooled1.262950.792
IL7-3/WTpooled1.124691
IL12-4/WTpooled0.841280.71
IL1-4/WTpooled1.05251
WT/WTpooled0.871381

Experiment: Transcriptional changes determined by expression of the Xanthomonas AvrRxv effector in resistant tomato plants
hybridizationratioFDR (corrected p value)
10 h post inoculation0.939050.975

Experiment: Time course of DC3000 vs delta hrp on tomato Prf-3
hybridizationratioFDR (corrected p value)
DC3000/delat hrp 0h0.932131
DC3000/delta hrp 6h0.933210.95
DC3000/delta hrp 12h1.021831
DC3000/delta hrp 24h1.548140.283

Experiment: DC3000 effector mutants
hybridizationratioFDR (corrected p value)
DC3000 delta A/DC3000 delta AB0.862450.436
DC3000 delta B/DC3000 delta AB0.619140.02

Experiment: Matt's wild cherry tomato vs. Phytophthora infestans
hybridizationratioFDR (corrected p value)
Exp 12h1.000111
Exp 36h0.627810.406
Exp 60h0.875090.664

Experiment: Gene expression profiling of infection of tomato by Phytophthora infestans in the field
hybridizationratioFDR (corrected p value)
self-self1.001851
Var 0h0.899651
Var 12h I row2-row11.149710.795
Var 12h NI row2-row10.985821
Var 36h I row2-row11.004021
Var 36h NI row2-row11.100021
Var 60h I row2-row10.974560.952
Var 60h NI row2-row11.012281
Time course 0hI-0hNI1.561890.833
Time course 12hI-12hNI0.979080.886
Time course 36hI-36hNI0.870070.091
Time course 60hI-60hNI0.317990.005

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)1.147260.36
transgenic ySAMdc/azygous control (breaker)0.955391
transgenic ySAMdc/azygous control (red)1.082710.92

Experiment: Tomato root culture and Al treatment
hybridizationratioFDR (corrected p value)
Al-treated/control0.873490.126

Experiment: Microarray Analysis on Salt Stress Affected Genes in Tomato Seedlings
hybridizationratioFDR (corrected p value)
salt-treated/no salt1.331190.229

Experiment: Transcriptional Profiling of high pigment-2dg Tomato Mutant Fruit
hybridizationratioFDR (corrected p value)
Manapal/WT (mature green)1.237580.307
Manapal/WT (break)2.278420.123
Manapal/WT (red)1.187671