Expression of 1-1-3.2.5.4

r value cutoff
Experiment: Wild type tomato fruit development (set 1)
hybridizationratioFDR (corrected p value)
17DAP/7DAP0.748080.148
27DAP/17DAP1.696710.804
39DAP/27DAP0.905080.631
41DAP/39DAP0.796840.512
42DAP/41DAP1.271220.983
43DAP/42DAP1.075261
47DAP/43DAP1.289420.746
52DAP/47DAP1.164320.787
57DAP/52DAP1.139140.977

Experiment: Wild type tomato fruit development (set 2)
hybridizationratioFDR (corrected p value)
7DAP/reference0.459690.027
17DAP/reference0.691240.016
27DAP/reference0.6830.012
39DAP/reference0.665740.017
41DAP/reference0.866540.267
42DAP/reference0.588160.003
43DAP/reference0.705020.025
47DAP/reference0.650610.004
52DAP/reference0.521330.012
57DAP/reference0.702720.012

Experiment: tomato Never-ripe mutant fruit development
hybridizationratioFDR (corrected p value)
17DAP/7DAP1.471730.036
27DAP/17DAP0.917650.446
39DAP/27DAP0.85420.35
41DAP/39DAP1.053440.895
42DAP/41DAP0.978240.715
43DAP/42DAP0.934810.415
47DAP/43DAP0.83880.41
52DAP/47DAP2.001670.048
57DAP/52DAP1.79830.094
57DAP/7DAP1.300331

Experiment: tomato rin mutant fruit development
hybridizationratioFDR (corrected p value)
7DAP/reference0.61820.066
17DAP/reference0.594210.012
27DAP/reference0.777810.015
39DAP/reference0.557350.011
41DAP/reference0.501290.009
42DAP/reference0.578840.01
43DAP/reference0.423990.01
47DAP/reference0.382780.03
52DAP/reference0.471840.012
57DAP/reference0.378840.006

Experiment: tomato nor mutant fruit development
hybridizationratioFDR (corrected p value)
7DAP/reference0.625960.053
17DAP/reference0.561110.028
27DAP/reference0.670750.087
39DAP/reference0.659010.102
41DAP/reference0.859090.124
42DAP/reference0.824740.15
43DAP/reference0.820590.043
47DAP/reference0.555760.016
52DAP/reference0.48840.008
57DAP/reference0.598320.03

Experiment: tomato hp1 mutant fruit development
hybridizationratioFDR (corrected p value)
7DAP/reference0.663430.048
17DAP/reference0.588160.103
27DAP/reference0.466620.024
39DAP/reference0.453250.013
41DAP/reference0.591720.018
42DAP/reference0.565150.015
43DAP/reference0.529560.031
47DAP/reference0.289610.004
52DAP/reference0.726310.211
57DAP/reference0.432150.016

Experiment: Wild type pepper fruit development
hybridizationratioFDR (corrected p value)
20DAP/14DAP0.75296
26DAP/20DAP3.508940.62
34DAP/26DAP2.988371
51DAP/34DAP1.465410.936
52DAP/51DAP2.78640.036
53DAP/52DAP0.73770.128
55DAP/53DAP1.220150.076
57DAP/55DAP0.280280.019
62DAP/57DAPN/AN/A
68DAP/62DAP0.534150.429
68DAP/14DAP0.50516

Experiment: Tomato (breaker-stage) vs. Pepper (breaker-stage)
hybridizationratioFDR (corrected p value)
Tomato Breaker/Pepper Breaker0.382820.02

Experiment: Solanaceae fruit comparison
hybridizationratioFDR (corrected p value)
Green Pepper/Ripe PepperN/AN/A
Mature Green Tomato/Ripe TomatoN/AN/A
Immature Eggplant/Mature EggplantN/AN/A
Ripe Pepper/Ripe Tomato0.86237
Mature Eggplant/Ripe Tomato0.521660.234

Experiment: IL carotenoid
hybridizationratioFDR (corrected p value)
11-1/M82N/AN/A
1-1-2/M82N/AN/A
12-2/M82N/AN/A
12-4/M82N/AN/A
1-3/M82N/AN/A
2-1-1/M82N/AN/A
2-1/M82N/AN/A
2-6/M821.26554
3-2/M82N/AN/A
4-1-1/M82N/AN/A
4-1/M820.95505
4-3-2/M82N/AN/A
4-3/M82N/AN/A
5-3/M821.02621
6-2/M82N/AN/A
6-3/M82N/AN/A
7-1/M82N/AN/A
7-2/M820.87331
9-3-2/M82N/AN/A

Experiment: Tomato introgression line transcript analysis
hybridizationratioFDR (corrected p value)
IL4-4/WTpooled1.090851
IL2-6/WTpooled1.081160.395
IL7-5/WTpooled3.02153
IL7-3/WTpooled1.244631
IL12-4/WTpooled0.805420.581
IL1-4/WTpooled0.98351
WT/WTpooled0.838771

Experiment: Transcriptional changes determined by expression of the Xanthomonas AvrRxv effector in resistant tomato plants
hybridizationratioFDR (corrected p value)
10 h post inoculation0.794050.209

Experiment: Time course of DC3000 vs delta hrp on tomato Prf-3
hybridizationratioFDR (corrected p value)
DC3000/delat hrp 0h0.958961
DC3000/delta hrp 6hN/AN/A
DC3000/delta hrp 12h1.012551
DC3000/delta hrp 24h1.095040.633

Experiment: DC3000 effector mutants
hybridizationratioFDR (corrected p value)
DC3000 delta A/DC3000 delta AB1.039940.355
DC3000 delta B/DC3000 delta AB1.117850.55

Experiment: Matt's wild cherry tomato vs. Phytophthora infestans
hybridizationratioFDR (corrected p value)
Exp 12hN/AN/A
Exp 36hN/AN/A
Exp 60hN/AN/A

Experiment: Gene expression profiling of infection of tomato by Phytophthora infestans in the field
hybridizationratioFDR (corrected p value)
self-self1.004871
Var 0h0.571431
Var 12h I row2-row10.786760.467
Var 12h NI row2-row11.052211
Var 36h I row2-row10.91480.805
Var 36h NI row2-row11.573180.276
Var 60h I row2-row10.974020.952
Var 60h NI row2-row10.848880.977
Time course 0hI-0hNI0.871680.133
Time course 12hI-12hNI0.909840.454
Time course 36hI-36hNI0.86360.032
Time course 60hI-60hNI0.489520.006

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)4.791051
transgenic ySAMdc/azygous control (breaker)1.701631
transgenic ySAMdc/azygous control (red)1.561750.92

Experiment: Tomato root culture and Al treatment
hybridizationratioFDR (corrected p value)
Al-treated/control0.961360.27

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)N/AN/A
Manapal/WT (break)1.114081
Manapal/WT (red)1.08511