Expression of 1-1-1.1.1.12

r value cutoff
Experiment: Wild type tomato fruit development (set 1)
hybridizationratioFDR (corrected p value)
17DAP/7DAP1.070590.863
27DAP/17DAP0.566030.027
39DAP/27DAP0.715270.353
41DAP/39DAP0.867520.475
42DAP/41DAP0.961041
43DAP/42DAP1.184631
47DAP/43DAP0.825730.439
52DAP/47DAP0.962110.823
57DAP/52DAP0.978530.971

Experiment: Wild type tomato fruit development (set 2)
hybridizationratioFDR (corrected p value)
7DAP/reference1.026750.76
17DAP/reference1.084060.053
27DAP/reference0.875990.073
39DAP/reference0.976510.68
41DAP/reference0.870590.201
42DAP/reference0.852450.005
43DAP/reference1.085740.233
47DAP/reference0.820620.013
52DAP/reference0.779130.147
57DAP/reference0.823650.165

Experiment: tomato Never-ripe mutant fruit development
hybridizationratioFDR (corrected p value)
17DAP/7DAP0.850710.299
27DAP/17DAP1.074430.945
39DAP/27DAP0.505070.032
41DAP/39DAP0.499420.013
42DAP/41DAP0.997160.845
43DAP/42DAP1.027170.699
47DAP/43DAP0.812770.031
52DAP/47DAP1.014540.97
57DAP/52DAP0.85920.454
57DAP/7DAP0.64987

Experiment: tomato rin mutant fruit development
hybridizationratioFDR (corrected p value)
7DAP/reference1.739440.027
17DAP/reference1.345260.008
27DAP/reference1.129950.041
39DAP/reference1.183110.411
41DAP/reference1.105590.491
42DAP/reference1.187280.308
43DAP/reference0.893420.04
47DAP/reference0.728790.101
52DAP/reference1.181350.034
57DAP/reference1.136970.057

Experiment: tomato nor mutant fruit development
hybridizationratioFDR (corrected p value)
7DAP/reference0.891880.182
17DAP/reference0.908290.159
27DAP/reference0.911130.327
39DAP/reference0.770960.013
41DAP/reference0.858380.083
42DAP/reference0.781470.024
43DAP/reference0.753260.021
47DAP/reference0.845790.018
52DAP/reference0.748880.004
57DAP/reference0.686550.003

Experiment: tomato hp1 mutant fruit development
hybridizationratioFDR (corrected p value)
7DAP/reference1.690060.025
17DAP/reference1.510040.146
27DAP/reference0.937010.27
39DAP/reference1.122240.264
41DAP/reference1.284110.009
42DAP/reference0.863360.172
43DAP/reference0.807740.095
47DAP/reference0.798590.027
52DAP/reference0.781360.098
57DAP/reference0.926360.333

Experiment: Wild type pepper fruit development
hybridizationratioFDR (corrected p value)
20DAP/14DAP1.04180.966
26DAP/20DAP0.843761
34DAP/26DAP0.994520.97
51DAP/34DAP0.650890.061
52DAP/51DAP0.968811
53DAP/52DAP0.932120.767
55DAP/53DAP1.065680.994
57DAP/55DAP1.030490.899
62DAP/57DAP1.24580.622
68DAP/62DAP1.079810.907
68DAP/14DAP1.114730.694

Experiment: Tomato (breaker-stage) vs. Pepper (breaker-stage)
hybridizationratioFDR (corrected p value)
Tomato Breaker/Pepper Breaker0.478980.028

Experiment: Solanaceae fruit comparison
hybridizationratioFDR (corrected p value)
Green Pepper/Ripe Pepper2.701910.058
Mature Green Tomato/Ripe Tomato3.687560.034
Immature Eggplant/Mature Eggplant0.482930.061
Ripe Pepper/Ripe Tomato1.133311
Mature Eggplant/Ripe Tomato2.74820.373

Experiment: IL carotenoid
hybridizationratioFDR (corrected p value)
11-1/M820.93170.944
1-1-2/M820.975941
12-2/M820.971270.955
12-4/M821.011221
1-3/M820.656060.378
2-1-1/M821.219040.689
2-1/M82N/AN/A
2-6/M821.338970.505
3-2/M820.986631
4-1-1/M821.10461
4-1/M820.850931
4-3-2/M821.034371
4-3/M820.876760.466
5-3/M821.00721
6-2/M821.022541
6-3/M821.090121
7-1/M821.150370.992
7-2/M821.133550.385
9-3-2/M820.790660.449

Experiment: Tomato introgression line transcript analysis
hybridizationratioFDR (corrected p value)
IL4-4/WTpooled1.192520.277
IL2-6/WTpooled0.911871
IL7-5/WTpooled0.855791
IL7-3/WTpooled0.98021
IL12-4/WTpooled0.755380.497
IL1-4/WTpooled0.933910.562
WT/WTpooled1.018471

Experiment: Transcriptional changes determined by expression of the Xanthomonas AvrRxv effector in resistant tomato plants
hybridizationratioFDR (corrected p value)
10 h post inoculation0.933590.975

Experiment: Time course of DC3000 vs delta hrp on tomato Prf-3
hybridizationratioFDR (corrected p value)
DC3000/delat hrp 0h0.991331
DC3000/delta hrp 6h0.902410.95
DC3000/delta hrp 12h0.970581
DC3000/delta hrp 24h0.898590.163

Experiment: DC3000 effector mutants
hybridizationratioFDR (corrected p value)
DC3000 delta A/DC3000 delta AB0.49890.024
DC3000 delta B/DC3000 delta AB0.437760.023

Experiment: Matt's wild cherry tomato vs. Phytophthora infestans
hybridizationratioFDR (corrected p value)
Exp 12h0.951291
Exp 36h0.856170.589
Exp 60h0.816310.454

Experiment: Gene expression profiling of infection of tomato by Phytophthora infestans in the field
hybridizationratioFDR (corrected p value)
self-self0.996471
Var 0h1.050380.98
Var 12h I row2-row10.740520.338
Var 12h NI row2-row10.96650.906
Var 36h I row2-row11.024941
Var 36h NI row2-row11.190931
Var 60h I row2-row11.129590.562
Var 60h NI row2-row11.060311
Time course 0hI-0hNI2.513090.799
Time course 12hI-12hNI0.938980.612
Time course 36hI-36hNI0.784050.038
Time course 60hI-60hNI0.0980.005

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)1.133860.748
transgenic ySAMdc/azygous control (breaker)4.19420.162
transgenic ySAMdc/azygous control (red)0.9341

Experiment: Tomato root culture and Al treatment
hybridizationratioFDR (corrected p value)
Al-treated/control0.84720.131

Experiment: Microarray Analysis on Salt Stress Affected Genes in Tomato Seedlings
hybridizationratioFDR (corrected p value)
salt-treated/no salt1.650110.222

Experiment: Transcriptional Profiling of high pigment-2dg Tomato Mutant Fruit
hybridizationratioFDR (corrected p value)
Manapal/WT (mature green)2.544520.083
Manapal/WT (break)6.868870.14
Manapal/WT (red)5.039560.142