Tomato Functional Genomics Database (TFGD)

Expression of 1-1-8.2.16.11

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.28915	0.014
27DAP/17DAP	0.7603	0.298
39DAP/27DAP	0.79584	0.421
41DAP/39DAP	1.2634	0.701
42DAP/41DAP	1.46571	0.777
43DAP/42DAP	0.83248	0.671
47DAP/43DAP	0.97086	0.868
52DAP/47DAP	1.89036	0.167
57DAP/52DAP	0.8851	0.844

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.48188	0.007
17DAP/reference	0.97568	0.567
27DAP/reference	0.988	0.711
39DAP/reference	0.9052	0.124
41DAP/reference	0.96759	0.434
42DAP/reference	1.06095	0.012
43DAP/reference	1.01865	0.73
47DAP/reference	1.04855	0.306
52DAP/reference	1.04697	0.335
57DAP/reference	0.98037	0.456

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.5359	0.02
27DAP/17DAP	0.87326	0.446
39DAP/27DAP	0.96722	0.759
41DAP/39DAP	1.09636	0.88
42DAP/41DAP	0.94699	0.603
43DAP/42DAP	1.04776	0.627
47DAP/43DAP	1.01941	0.948
52DAP/47DAP	1.00019	0.975
57DAP/52DAP	1.01156	1
57DAP/7DAP	0.53614	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.91646	0.326
17DAP/reference	1.06437	0.822
27DAP/reference	1.19152	0.246
39DAP/reference	1.05655	1
41DAP/reference	1.18911	0.223
42DAP/reference	1.02385	1
43DAP/reference	0.99655	0.665
47DAP/reference	1.06454	0.854
52DAP/reference	1.19113	0.098
57DAP/reference	0.99961	0.648

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.50279	0.196
17DAP/reference	1.10843	0.101
27DAP/reference	1.16387	0.109
39DAP/reference	1.09731	0.62
41DAP/reference	1.24645	0.166
42DAP/reference	1.14806	0.195
43DAP/reference	1.11301	0.611
47DAP/reference	1.07709	0.426
52DAP/reference	1.12703	0.181
57DAP/reference	1.24818	0.013

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.87559	0.135
17DAP/reference	0.97838	0.668
27DAP/reference	1.01954	0.934
39DAP/reference	0.94949	0.43
41DAP/reference	1.19623	0.134
42DAP/reference	1.19933	0.382
43DAP/reference	1.25614	0.089
47DAP/reference	1.02398	1
52DAP/reference	1.20867	0.186
57DAP/reference	1.4466	0.026

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.25153	0.966
26DAP/20DAP	1.31947	0.215
34DAP/26DAP	0.63867	0.066
51DAP/34DAP	0.58062	0.06
52DAP/51DAP	1.09741	0.358
53DAP/52DAP	0.91907	0.712
55DAP/53DAP	1.02873	0.904
57DAP/55DAP	1.03085	1
62DAP/57DAP	1.06205	1
68DAP/62DAP	0.9828	0.81
68DAP/14DAP	0.71193	0.375

Experiment: Tomato (breaker-stage) vs. Pepper (breaker-stage)

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.68266	0.021

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	3.39617	0.058
Mature Green Tomato/Ripe Tomato	1.0449	1
Immature Eggplant/Mature Eggplant	0.90815	0.254
Ripe Pepper/Ripe Tomato	0.71434	0.293
Mature Eggplant/Ripe Tomato	24.8624	0.26

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	N/A	N/A
1-1-2/M82	1.09955
12-2/M82	N/A	N/A
12-4/M82	N/A	N/A
1-3/M82	N/A	N/A
2-1-1/M82	N/A	N/A
2-1/M82	N/A	N/A
2-6/M82	N/A	N/A
3-2/M82	N/A	N/A
4-1-1/M82	N/A	N/A
4-1/M82	0.47215
4-3-2/M82	0.83847	1
4-3/M82	N/A	N/A
5-3/M82	N/A	N/A
6-2/M82	N/A	N/A
6-3/M82	N/A	N/A
7-1/M82	N/A	N/A
7-2/M82	N/A	N/A
9-3-2/M82	0.70162

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	N/A	N/A
IL2-6/WTpooled	N/A	N/A
IL7-5/WTpooled	N/A	N/A
IL7-3/WTpooled	N/A	N/A
IL12-4/WTpooled	N/A	N/A
IL1-4/WTpooled	N/A	N/A
WT/WTpooled	N/A	N/A

Experiment: Transcriptional changes determined by expression of the Xanthomonas AvrRxv effector in resistant tomato plants

hybridization	ratio	FDR (corrected p value)
10 h post inoculation	0.8503	0.75

Experiment: Time course of DC3000 vs delta hrp on tomato Prf-3

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.89054
DC3000/delta hrp 6h	1.00098	0.95
DC3000/delta hrp 12h	1.07854	1
DC3000/delta hrp 24h	1.09776	0.728

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.02064
DC3000 delta B/DC3000 delta AB	0.86378	0.167

Experiment: Matt's wild cherry tomato vs. Phytophthora infestans

hybridization	ratio	FDR (corrected p value)
Exp 12h	1.02374	1
Exp 36h	1.82813	0.489
Exp 60h	1.23541	0.399

Experiment: Gene expression profiling of infection of tomato by Phytophthora infestans in the field

hybridization	ratio	FDR (corrected p value)
self-self	0.97598	1
Var 0h	1.38604	0.594
Var 12h I row2-row1	0.84191	0.338
Var 12h NI row2-row1	0.99124	1
Var 36h I row2-row1	0.89141	0.805
Var 36h NI row2-row1	1.17182	1
Var 60h I row2-row1	0.99624	1
Var 60h NI row2-row1	0.9771	1
Time course 0hI-0hNI	0.97737	0.886
Time course 12hI-12hNI	1.04472	0.482
Time course 36hI-36hNI	0.87089	0.169
Time course 60hI-60hNI	0.77171	0.047

Experiment: Transcriptional profiling of the tomato fruit pericarp tissue: fruits overexpressing yeast ySAMdc gene and controls

hybridization	ratio	FDR (corrected p value)
transgenic ySAMdc/azygous control (mature green)	1.06904	0.272
transgenic ySAMdc/azygous control (breaker)	0.90121	0.251
transgenic ySAMdc/azygous control (red)	1.05128	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.02479	0.317

Experiment: Microarray Analysis on Salt Stress Affected Genes in Tomato Seedlings

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.60417	0.238

Experiment: Transcriptional Profiling of high pigment-2dg Tomato Mutant Fruit

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.19363	0.096
Manapal/WT (break)	1.44134	0.14
Manapal/WT (red)	0.9932	1