Expression of 1-1-3.3.9.1

r value cutoff
Experiment: Wild type tomato fruit development (set 1)
hybridizationratioFDR (corrected p value)
17DAP/7DAP0.784630.159
27DAP/17DAP0.771130.381
39DAP/27DAP1.907140.072
41DAP/39DAP0.868690.54
42DAP/41DAP1.218190.82
43DAP/42DAP0.849890.454
47DAP/43DAP0.865940.568
52DAP/47DAP0.993470.924
57DAP/52DAP1.291490.758

Experiment: Wild type tomato fruit development (set 2)
hybridizationratioFDR (corrected p value)
7DAP/reference1.088710.814
17DAP/reference0.879310.158
27DAP/reference1.085780.165
39DAP/reference1.047530.828
41DAP/reference0.870730.201
42DAP/reference1.047231
43DAP/reference1.085410.838
47DAP/reference1.313270.093
52DAP/reference1.510660.026
57DAP/reference1.285750.101

Experiment: tomato Never-ripe mutant fruit development
hybridizationratioFDR (corrected p value)
17DAP/7DAP1.009531
27DAP/17DAP0.960460.878
39DAP/27DAP1.097930.56
41DAP/39DAP1.206470.19
42DAP/41DAP0.93770.552
43DAP/42DAP0.916260.367
47DAP/43DAP1.047750.848
52DAP/47DAP0.982040.925
57DAP/52DAP1.253040.293
57DAP/7DAP0.974161

Experiment: tomato rin mutant fruit development
hybridizationratioFDR (corrected p value)
7DAP/reference1.689710.025
17DAP/reference1.204720.199
27DAP/reference1.257090.041
39DAP/reference1.285070.007
41DAP/reference1.107580.43
42DAP/reference0.967540.436
43DAP/reference1.024681
47DAP/reference1.061140.732
52DAP/reference1.35790.055
57DAP/reference1.328250.016

Experiment: tomato nor mutant fruit development
hybridizationratioFDR (corrected p value)
7DAP/reference0.996140.669
17DAP/reference0.958930.536
27DAP/reference1.138930.143
39DAP/reference1.29410.093
41DAP/reference1.226770.269
42DAP/reference1.106710.342
43DAP/reference0.812590.166
47DAP/reference0.941390.311
52DAP/reference1.128620.181
57DAP/reference0.832960.099

Experiment: tomato hp1 mutant fruit development
hybridizationratioFDR (corrected p value)
7DAP/reference1.864550.019
17DAP/reference1.121620.631
27DAP/reference1.070820.357
39DAP/reference1.154290.043
41DAP/reference1.048540.57
42DAP/reference1.378820.131
43DAP/reference1.431480.012
47DAP/reference1.099710.585
52DAP/reference1.602210.072
57DAP/reference1.579080.013

Experiment: Wild type pepper fruit development
hybridizationratioFDR (corrected p value)
20DAP/14DAP0.739021
26DAP/20DAP1.670740.098
34DAP/26DAP0.91560.682
51DAP/34DAP0.890860.466
52DAP/51DAP0.98391
53DAP/52DAP0.95840.854
55DAP/53DAP0.708180.14
57DAP/55DAP1.182290.818
62DAP/57DAP1.252990.622
68DAP/62DAP1.376010.392
68DAP/14DAP1.381240.108

Experiment: Tomato (breaker-stage) vs. Pepper (breaker-stage)
hybridizationratioFDR (corrected p value)
Tomato Breaker/Pepper Breaker1.606320.035

Experiment: Solanaceae fruit comparison
hybridizationratioFDR (corrected p value)
Green Pepper/Ripe Pepper1.172570.287
Mature Green Tomato/Ripe Tomato1.056840.835
Immature Eggplant/Mature Eggplant0.935960.594
Ripe Pepper/Ripe Tomato0.891241
Mature Eggplant/Ripe Tomato1.044021

Experiment: IL carotenoid
hybridizationratioFDR (corrected p value)
11-1/M821.024491
1-1-2/M821.21791
12-2/M820.875230.955
12-4/M821.092671
1-3/M822.692010.26
2-1-1/M820.742020.465
2-1/M820.685080.325
2-6/M820.866751
3-2/M821.219040.84
4-1-1/M821.225810.938
4-1/M821.761721
4-3-2/M821.433230.508
4-3/M821.443710.268
5-3/M821.231650.572
6-2/M821.158280.253
6-3/M821.014061
7-1/M820.850670.803
7-2/M821.326910.385
9-3-2/M821.140641

Experiment: Tomato introgression line transcript analysis
hybridizationratioFDR (corrected p value)
IL4-4/WTpooled0.98072
IL2-6/WTpooled0.953221
IL7-5/WTpooled1.23202
IL7-3/WTpooled1.10311
IL12-4/WTpooled0.998951
IL1-4/WTpooled1.032730.426
WT/WTpooled1.001391

Experiment: Transcriptional changes determined by expression of the Xanthomonas AvrRxv effector in resistant tomato plants
hybridizationratioFDR (corrected p value)
10 h post inoculation1.165730.853

Experiment: Time course of DC3000 vs delta hrp on tomato Prf-3
hybridizationratioFDR (corrected p value)
DC3000/delat hrp 0h1.044270.921
DC3000/delta hrp 6h0.960930.95
DC3000/delta hrp 12h1.083321
DC3000/delta hrp 24h1.155030.322

Experiment: DC3000 effector mutants
hybridizationratioFDR (corrected p value)
DC3000 delta A/DC3000 delta AB1.253210.055
DC3000 delta B/DC3000 delta AB1.167350.321

Experiment: Matt's wild cherry tomato vs. Phytophthora infestans
hybridizationratioFDR (corrected p value)
Exp 12h0.780171
Exp 36h1.010541
Exp 60h1.032291

Experiment: Gene expression profiling of infection of tomato by Phytophthora infestans in the field
hybridizationratioFDR (corrected p value)
self-self1.034711
Var 0h1.004331
Var 12h I row2-row11.047611
Var 12h NI row2-row11.057621
Var 36h I row2-row11.253160.368
Var 36h NI row2-row10.962920.791
Var 60h I row2-row10.872510.374
Var 60h NI row2-row10.747780.329
Time course 0hI-0hNI0.842470.111
Time course 12hI-12hNI1.070980.536
Time course 36hI-36hNI1.285070.19
Time course 60hI-60hNI1.550470.008

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)0.997710.931
transgenic ySAMdc/azygous control (breaker)1.35160.248
transgenic ySAMdc/azygous control (red)1.350920.92

Experiment: Tomato root culture and Al treatment
hybridizationratioFDR (corrected p value)
Al-treated/controlN/AN/A

Experiment: Microarray Analysis on Salt Stress Affected Genes in Tomato Seedlings
hybridizationratioFDR (corrected p value)
salt-treated/no saltN/AN/A

Experiment: Transcriptional Profiling of high pigment-2dg Tomato Mutant Fruit
hybridizationratioFDR (corrected p value)
Manapal/WT (mature green)0.886371
Manapal/WT (break)1.273440.183
Manapal/WT (red)1.306120.413