Tomato Functional Genomics Database (TFGD)

Expression of 1-1-7.1.20.6

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.02487	0.977
27DAP/17DAP	1.15425	0.842
39DAP/27DAP	0.81434	0.462
41DAP/39DAP	1.68097	0.173
42DAP/41DAP	0.92227	1
43DAP/42DAP	1.05822	1
47DAP/43DAP	1.10012	0.825
52DAP/47DAP	1.06746	0.876
57DAP/52DAP	1.089	0.977

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.96022	0.476
17DAP/reference	1.05948	0.412
27DAP/reference	1.24083	0.023
39DAP/reference	1.03209	0.603
41DAP/reference	1.01066	1
42DAP/reference	0.85758	0.006
43DAP/reference	0.9794	0.728
47DAP/reference	0.90073	0.224
52DAP/reference	0.83349	0.042
57DAP/reference	0.86721	0.091

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.97093	0.697
27DAP/17DAP	1.03365	0.923
39DAP/27DAP	1.07156	0.581
41DAP/39DAP	1.07881	0.876
42DAP/41DAP	1.09355	0.976
43DAP/42DAP	1.0455	0.23
47DAP/43DAP	0.94089	0.588
52DAP/47DAP	1.04005	0.862
57DAP/52DAP	0.96361	0.56
57DAP/7DAP	0.87114	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.0608	0.625
17DAP/reference	0.84085	0.012
27DAP/reference	0.82276	0.011
39DAP/reference	0.83482	0.014
41DAP/reference	0.84825	0.056
42DAP/reference	0.72311	0.015
43DAP/reference	0.81322	0.017
47DAP/reference	0.82012	0.079
52DAP/reference	0.89572	0.15
57DAP/reference	1.05247	0.746

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.93694	0.374
17DAP/reference	0.90055	0.124
27DAP/reference	1.04089	0.888
39DAP/reference	0.85808	0.159
41DAP/reference	0.7797	0.11
42DAP/reference	0.8029	0.032
43DAP/reference	0.88091	0.196
47DAP/reference	0.88961	0.292
52DAP/reference	0.99019	0.619
57DAP/reference	0.88517	0.18

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.84791	0.061
17DAP/reference	0.9272	0.398
27DAP/reference	0.90672	0.243
39DAP/reference	0.85632	0.04
41DAP/reference	0.90345	0.167
42DAP/reference	0.69008	0.014
43DAP/reference	0.83867	0.049
47DAP/reference	0.86898	0.132
52DAP/reference	0.75852	0.114
57DAP/reference	0.95916	0.534

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.11422	0.966
26DAP/20DAP	0.91867	0.512
34DAP/26DAP	1.002	1
51DAP/34DAP	0.8667	0.184
52DAP/51DAP	1.03563	0.596
53DAP/52DAP	0.89488	0.723
55DAP/53DAP	0.9313	0.5
57DAP/55DAP	1.09767	0.975
62DAP/57DAP	1.05542	0.868
68DAP/62DAP	1.5264	0.635
68DAP/14DAP	0.84461	1

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.87787	0.166

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	0.52607
Mature Green Tomato/Ripe Tomato	1.48818	0.019
Immature Eggplant/Mature Eggplant	N/A	N/A
Ripe Pepper/Ripe Tomato	0.96555	1
Mature Eggplant/Ripe Tomato	0.39116	0.234

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	0.99081	1
1-1-2/M82	0.9731	1
12-2/M82	0.94817	0.955
12-4/M82	0.92777	1
1-3/M82	0.93649	1
2-1-1/M82	1.17872	0.689
2-1/M82	1.02012	1
2-6/M82	1.04499	0.695
3-2/M82	0.98387	1
4-1-1/M82	0.99007	1
4-1/M82	0.68245	1
4-3-2/M82	0.97797	1
4-3/M82	1.1572	1
5-3/M82	0.97627	1
6-2/M82	1.04858	1
6-3/M82	0.99707	1
7-1/M82	0.98021	0.803
7-2/M82	1.06063	1
9-3-2/M82	0.85436	1

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	0.95969	1
IL2-6/WTpooled	N/A	N/A
IL7-5/WTpooled	0.92436	1
IL7-3/WTpooled	N/A	N/A
IL12-4/WTpooled	0.98292	1
IL1-4/WTpooled	0.79881	0.402
WT/WTpooled	0.90947	1

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	N/A	N/A

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.92985	1
DC3000/delta hrp 6h	1.20519	0.857
DC3000/delta hrp 12h	1.17686	1
DC3000/delta hrp 24h	1.15	0.069

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.27559	0.121
DC3000 delta B/DC3000 delta AB	N/A	N/A

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	1.00339	1
Exp 36h	1.11861	1
Exp 60h	0.92055	0.855

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

hybridization	ratio	FDR (corrected p value)
self-self	0.96174	1
Var 0h	N/A	N/A
Var 12h I row2-row1	1.14777	0.283
Var 12h NI row2-row1	1.01897	1
Var 36h I row2-row1	1.14536	1
Var 36h NI row2-row1	1.01227	1
Var 60h I row2-row1	1.05131	1
Var 60h NI row2-row1	1.13994	0.904
Time course 0hI-0hNI	1.07371	0.852
Time course 12hI-12hNI	1.01135	0.876
Time course 36hI-36hNI	0.93438	0.29
Time course 60hI-60hNI	1.05691	0.575

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)	0.96826	0.722
transgenic ySAMdc/azygous control (breaker)	1.25258	0.178
transgenic ySAMdc/azygous control (red)	1.04976	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.94415	0.214

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.00535	1

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.96696	1
Manapal/WT (break)	1.19949	1
Manapal/WT (red)	1.3352	0.222