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Expression of 1-1-2.4.9.6

r value cutoff
Experiment: Wild type tomato fruit development (set 1)
hybridizationratioFDR (corrected p value)
17DAP/7DAP0.762860.087
27DAP/17DAP0.970250.889
39DAP/27DAP1.356590.206
41DAP/39DAP0.684630.1
42DAP/41DAP0.860750.774
43DAP/42DAP1.009231
47DAP/43DAP0.914390.696
52DAP/47DAP0.752560.377
57DAP/52DAP1.106420.935

Experiment: Wild type tomato fruit development (set 2)
hybridizationratioFDR (corrected p value)
7DAP/reference1.725680.015
17DAP/reference1.377140.104
27DAP/reference1.11270.285
39DAP/reference1.146430.691
41DAP/reference1.161950.624
42DAP/reference1.725650.001
43DAP/reference1.570620.009
47DAP/reference1.452830.001
52DAP/reference0.886790.071
57DAP/reference1.222580.049

Experiment: tomato Never-ripe mutant fruit development
hybridizationratioFDR (corrected p value)
17DAP/7DAP0.976050.732
27DAP/17DAP0.953930.724
39DAP/27DAP0.912710.308
41DAP/39DAP1.124050.773
42DAP/41DAP0.970190.717
43DAP/42DAP0.876370.051
47DAP/43DAP1.057150.529
52DAP/47DAP0.857140.29
57DAP/52DAP0.831550.331
57DAP/7DAP0.873391

Experiment: tomato rin mutant fruit development
hybridizationratioFDR (corrected p value)
7DAP/reference1.771740.024
17DAP/reference1.94850.006
27DAP/reference1.824930.007
39DAP/reference1.674140.005
41DAP/reference1.661820.008
42DAP/reference1.600380.007
43DAP/reference1.399480.006
47DAP/reference1.65470.014
52DAP/reference1.901430.012
57DAP/reference2.069290.004

Experiment: tomato nor mutant fruit development
hybridizationratioFDR (corrected p value)
7DAP/reference1.215330.249
17DAP/reference1.885270.007
27DAP/reference1.707080.013
39DAP/reference1.21440.116
41DAP/reference1.43820.005
42DAP/reference1.643570.007
43DAP/reference1.456490.101
47DAP/reference2.086350.008
52DAP/reference0.926420.239
57DAP/reference1.171210.626

Experiment: tomato hp1 mutant fruit development
hybridizationratioFDR (corrected p value)
7DAP/reference1.729820.017
17DAP/reference1.299140.111
27DAP/reference1.393140.02
39DAP/reference1.605370.004
41DAP/reference1.260460.011
42DAP/reference1.405990.016
43DAP/reference1.501660.015
47DAP/reference1.183790.324
52DAP/reference1.486170.067
57DAP/reference1.176150.113

Experiment: Wild type pepper fruit development
hybridizationratioFDR (corrected p value)
20DAP/14DAP1.008881
26DAP/20DAP1.846650.144
34DAP/26DAP1.096661
51DAP/34DAP0.864160.394
52DAP/51DAP0.896571
53DAP/52DAP0.986230.929
55DAP/53DAP0.845240.515
57DAP/55DAP1.262790.87
62DAP/57DAP1.1070.767
68DAP/62DAP0.843440.505
68DAP/14DAP0.681870.375

Experiment: Tomato (breaker-stage) vs. Pepper (breaker-stage)
hybridizationratioFDR (corrected p value)
Tomato Breaker/Pepper Breaker2.08940.014

Experiment: Solanaceae fruit comparison
hybridizationratioFDR (corrected p value)
Green Pepper/Ripe Pepper0.929240.551
Mature Green Tomato/Ripe Tomato0.703260.446
Immature Eggplant/Mature Eggplant0.987421
Ripe Pepper/Ripe Tomato1.095771
Mature Eggplant/Ripe Tomato1.120791

Experiment: IL carotenoid
hybridizationratioFDR (corrected p value)
11-1/M820.930080.944
1-1-2/M820.900481
12-2/M820.80746N/A
12-4/M821.118211
1-3/M822.54904N/A
2-1-1/M82N/AN/A
2-1/M820.85427N/A
2-6/M820.999821
3-2/M820.899520.752
4-1-1/M821.06751
4-1/M822.31104N/A
4-3-2/M821.37014N/A
4-3/M821.368550.268
5-3/M821.249930.572
6-2/M821.144271
6-3/M821.50757N/A
7-1/M82N/AN/A
7-2/M821.202790.385
9-3-2/M821.186041

Experiment: Tomato introgression line transcript analysis
hybridizationratioFDR (corrected p value)
IL4-4/WTpooledN/AN/A
IL2-6/WTpooled0.927831
IL7-5/WTpooled0.86438N/A
IL7-3/WTpooled0.974911
IL12-4/WTpooled0.899681
IL1-4/WTpooled1.07574N/A
WT/WTpooled1.071940.911

Experiment: Transcriptional changes determined by expression of the Xanthomonas AvrRxv effector in resistant tomato plants
hybridizationratioFDR (corrected p value)
10 h post inoculation0.996131

Experiment: Time course of DC3000 vs delta hrp on tomato Prf-3
hybridizationratioFDR (corrected p value)
DC3000/delat hrp 0h1.053430.846
DC3000/delta hrp 6h1.083191
DC3000/delta hrp 12h0.992711
DC3000/delta hrp 24h1.17360.264

Experiment: DC3000 effector mutants
hybridizationratioFDR (corrected p value)
DC3000 delta A/DC3000 delta AB1.127560.121
DC3000 delta B/DC3000 delta AB1.224470.159

Experiment: Matt's wild cherry tomato vs. Phytophthora infestans
hybridizationratioFDR (corrected p value)
Exp 12h1.137141
Exp 36h1.348740.693
Exp 60h1.191990.563

Experiment: Gene expression profiling of infection of tomato by Phytophthora infestans in the field
hybridizationratioFDR (corrected p value)
self-self0.995661
Var 0hN/AN/A
Var 12h I row2-row10.996481
Var 12h NI row2-row11.268391
Var 36h I row2-row11.226970.283
Var 36h NI row2-row10.949510.743
Var 60h I row2-row10.814640.582
Var 60h NI row2-row10.751050.292
Time course 0hI-0hNI0.898280.162
Time course 12hI-12hNI1.079030.321
Time course 36hI-36hNI1.53710.009
Time course 60hI-60hNI2.884660.008

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)1.060030.748
transgenic ySAMdc/azygous control (breaker)1.055071
transgenic ySAMdc/azygous control (red)1.065210.92

Experiment: Tomato root culture and Al treatment
hybridizationratioFDR (corrected p value)
Al-treated/control1.115920.395

Experiment: Microarray Analysis on Salt Stress Affected Genes in Tomato Seedlings
hybridizationratioFDR (corrected p value)
salt-treated/no salt0.768040.238

Experiment: Transcriptional Profiling of high pigment-2dg Tomato Mutant Fruit
hybridizationratioFDR (corrected p value)
Manapal/WT (mature green)1.025341
Manapal/WT (break)1.099810.381
Manapal/WT (red)1.370540.142