Expression of 1-1-3.4.7.4

r value cutoff
Experiment: Wild type tomato fruit development (set 1)
hybridizationratioFDR (corrected p value)
17DAP/7DAP1.420310.303
27DAP/17DAP0.49740.03
39DAP/27DAP0.958450.583
41DAP/39DAP0.489870.041
42DAP/41DAP0.830841
43DAP/42DAP1.147390.906
47DAP/43DAP0.501630.049
52DAP/47DAP0.927650.779
57DAP/52DAP0.931850.923

Experiment: Wild type tomato fruit development (set 2)
hybridizationratioFDR (corrected p value)
7DAP/reference1.152840.872
17DAP/reference0.885810.18
27DAP/reference0.837040.013
39DAP/reference0.743250.085
41DAP/reference0.968360.814
42DAP/reference1.164430.05
43DAP/reference0.986350.763
47DAP/reference1.071260.329
52DAP/reference1.237470.167
57DAP/reference1.145130.321

Experiment: tomato Never-ripe mutant fruit development
hybridizationratioFDR (corrected p value)
17DAP/7DAP0.8510.388
27DAP/17DAP1.150090.768
39DAP/27DAP1.112430.691
41DAP/39DAP0.92720.849
42DAP/41DAP1.136580.508
43DAP/42DAP0.680420.024
47DAP/43DAP1.012580.923
52DAP/47DAP3.11346
57DAP/52DAP1.788410.084
57DAP/7DAP3.624451

Experiment: tomato rin mutant fruit development
hybridizationratioFDR (corrected p value)
7DAP/reference1.095330.286
17DAP/reference1.32630.006
27DAP/reference1.400490.009
39DAP/reference1.047980.634
41DAP/reference1.17431
42DAP/reference1.35728
43DAP/reference1.407490.307
47DAP/reference0.87087
52DAP/reference1.213140.062
57DAP/reference1.462870.003

Experiment: tomato nor mutant fruit development
hybridizationratioFDR (corrected p value)
7DAP/reference0.80964
17DAP/reference0.964440.077
27DAP/reference1.011661
39DAP/reference1.167570.097
41DAP/reference1.020731
42DAP/reference1.057310.715
43DAP/reference0.823640.08
47DAP/reference0.972590.368
52DAP/reference1.160620.014
57DAP/reference1.095740.252

Experiment: tomato hp1 mutant fruit development
hybridizationratioFDR (corrected p value)
7DAP/reference1.126020.23
17DAP/reference1.020321
27DAP/reference1.697160.02
39DAP/reference1.410150.075
41DAP/reference1.278170.012
42DAP/reference1.524410.013
43DAP/reference1.380950.007
47DAP/reference1.030451
52DAP/reference1.40325
57DAP/reference1.977810.023

Experiment: Wild type pepper fruit development
hybridizationratioFDR (corrected p value)
20DAP/14DAP1.107430.966
26DAP/20DAP3.648990.683
34DAP/26DAP1.692431
51DAP/34DAP0.97877
52DAP/51DAP5.131250.034
53DAP/52DAP0.712380.167
55DAP/53DAPN/AN/A
57DAP/55DAP0.216420.059
62DAP/57DAP1.478620.133
68DAP/62DAP1.71968
68DAP/14DAP2.494520.061

Experiment: Tomato (breaker-stage) vs. Pepper (breaker-stage)
hybridizationratioFDR (corrected p value)
Tomato Breaker/Pepper Breaker0.193260.033

Experiment: Solanaceae fruit comparison
hybridizationratioFDR (corrected p value)
Green Pepper/Ripe Pepper3.745980.058
Mature Green Tomato/Ripe Tomato15.56990.015
Immature Eggplant/Mature Eggplant0.405290.057
Ripe Pepper/Ripe Tomato39.35450.256
Mature Eggplant/Ripe Tomato65.5580.26

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/M821.01369
1-3/M82N/AN/A
2-1-1/M82N/AN/A
2-1/M82N/AN/A
2-6/M820.98647
3-2/M82N/AN/A
4-1-1/M820.98209
4-1/M82N/AN/A
4-3-2/M82N/AN/A
4-3/M821.55079
5-3/M821.476830.496
6-2/M82N/AN/A
6-3/M82N/AN/A
7-1/M82N/AN/A
7-2/M821.11637
9-3-2/M82N/AN/A

Experiment: Tomato introgression line transcript analysis
hybridizationratioFDR (corrected p value)
IL4-4/WTpooled1.201450.493
IL2-6/WTpooled1.329260.584
IL7-5/WTpooled0.702061
IL7-3/WTpooled0.825450.418
IL12-4/WTpooled1.166080.891
IL1-4/WTpooled0.728310.402
WT/WTpooled1.031321

Experiment: Transcriptional changes determined by expression of the Xanthomonas AvrRxv effector in resistant tomato plants
hybridizationratioFDR (corrected p value)
10 h post inoculation0.994581

Experiment: Time course of DC3000 vs delta hrp on tomato Prf-3
hybridizationratioFDR (corrected p value)
DC3000/delat hrp 0h0.976031
DC3000/delta hrp 6h0.94490.95
DC3000/delta hrp 12h1.020951
DC3000/delta hrp 24h0.961120.75

Experiment: DC3000 effector mutants
hybridizationratioFDR (corrected p value)
DC3000 delta A/DC3000 delta AB0.867670.213
DC3000 delta B/DC3000 delta AB0.862310.11

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-self0.99211
Var 0h1.690190.782
Var 12h I row2-row10.868280.363
Var 12h NI row2-row11.003981
Var 36h I row2-row10.856110.805
Var 36h NI row2-row11.059461
Var 60h I row2-row10.996691
Var 60h NI row2-row10.993061
Time course 0hI-0hNI0.988620.999
Time course 12hI-12hNI1.066130.544
Time course 36hI-36hNI0.964640.373
Time course 60hI-60hNI0.461380.007

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)1.087710.798
transgenic ySAMdc/azygous control (breaker)3.887130.162
transgenic ySAMdc/azygous control (red)1.115610.92

Experiment: Tomato root culture and Al treatment
hybridizationratioFDR (corrected p value)
Al-treated/control0.46160.072

Experiment: Microarray Analysis on Salt Stress Affected Genes in Tomato Seedlings
hybridizationratioFDR (corrected p value)
salt-treated/no salt2.474590.239

Experiment: Transcriptional Profiling of high pigment-2dg Tomato Mutant Fruit
hybridizationratioFDR (corrected p value)
Manapal/WT (mature green)30.49080.09
Manapal/WT (break)12.0040.123
Manapal/WT (red)2.356040.413