Tomato Functional Genomics Database (TFGD)

Expression of 1-1-8.1.3.4

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.73393	0.159
27DAP/17DAP	0.92245	0.839
39DAP/27DAP	1.41684	0.2
41DAP/39DAP	0.79688	0.262
42DAP/41DAP	1.07142	1
43DAP/42DAP	1.0342	1
47DAP/43DAP	0.95193	0.825
52DAP/47DAP	1.19756	0.769
57DAP/52DAP	1.14572	0.89

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	2.45519	0.028
17DAP/reference	0.73228	0.074
27DAP/reference	0.81542	0.249
39DAP/reference	0.57907	0.024
41DAP/reference	0.48325	0.009
42DAP/reference	1.33108	0.016
43DAP/reference	1.85327	0.617
47DAP/reference	0.67069	0.005
52DAP/reference	1.16287	0.088
57DAP/reference	0.50682

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.82756	0.093
27DAP/17DAP	0.98508	0.887
39DAP/27DAP	0.99724	1
41DAP/39DAP	1.37029	0.748
42DAP/41DAP	0.96913	0.712
43DAP/42DAP	0.94159	0.482
47DAP/43DAP	1.105	0.572
52DAP/47DAP	0.87087	0.111
57DAP/52DAP	1.39994	0.039
57DAP/7DAP	0.75857	0.219

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	2.10887
17DAP/reference	1.14811
27DAP/reference	1.75298
39DAP/reference	0.95251	0.011
41DAP/reference	1.05012	0.389
42DAP/reference	0.96208	0.178
43DAP/reference	1.03447	1
47DAP/reference	1.22107	0.083
52DAP/reference	0.9425	0.435
57DAP/reference	1.11033	0.026

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.66646	0.07
17DAP/reference	1.22438	0.613
27DAP/reference	1.03055	1
39DAP/reference	1.00298	0.603
41DAP/reference	1.32327	0.024
42DAP/reference	1.63435	0.01
43DAP/reference	0.8455	0.095
47DAP/reference	1.2209	0.087
52DAP/reference	0.78374	0.034
57DAP/reference	0.63386	0.18

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.63304
17DAP/reference	1.1257	0.706
27DAP/reference	1.70041	0.721
39DAP/reference	1.58123	0.633
41DAP/reference	1.69858	0.006
42DAP/reference	1.41737	0.05
43DAP/reference	1.14238	0.28
47DAP/reference	0.96998	0.478
52DAP/reference	1.32977	0.132
57DAP/reference	1.38174	0.013

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.7958	0.708
26DAP/20DAP	2.66639	0.097
34DAP/26DAP	0.83319	0.186
51DAP/34DAP	0.66868	0.064
52DAP/51DAP	0.90814	1
53DAP/52DAP	0.8803	0.379
55DAP/53DAP	0.60931	0.018
57DAP/55DAP	1.40867	0.793
62DAP/57DAP	1.20603	0.767
68DAP/62DAP	0.69246	0.245
68DAP/14DAP	1.11407	1

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.55921	0.025

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	3.48374	0.113
Mature Green Tomato/Ripe Tomato	1.49338	0.437
Immature Eggplant/Mature Eggplant	8.10315	0.05
Ripe Pepper/Ripe Tomato	0.28132	0.224
Mature Eggplant/Ripe Tomato	0.57135	1

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	N/A	N/A
1-1-2/M82	1.09067	0.977
12-2/M82	N/A	N/A
12-4/M82	0.83246	1
1-3/M82	3.01625
2-1-1/M82	1.38319
2-1/M82	N/A	N/A
2-6/M82	N/A	N/A
3-2/M82	0.90928
4-1-1/M82	N/A	N/A
4-1/M82	1.62193
4-3-2/M82	1.68947	0.284
4-3/M82	1.71454	0.268
5-3/M82	0.51373	0.419
6-2/M82	2.72686
6-3/M82	1.03141
7-1/M82	0.93622	1
7-2/M82	1.49088
9-3-2/M82	1.12936	1

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	1.34033	0.222

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.00178	1
DC3000/delta hrp 6h	1.11653	1
DC3000/delta hrp 12h	0.78096	1
DC3000/delta hrp 24h	2.54052	0.027

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.19696	0.27
DC3000 delta B/DC3000 delta AB	1.20039	0.188

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	1.045	1
Exp 36h	1.68575	1
Exp 60h	1.15443	1

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

hybridization	ratio	FDR (corrected p value)
self-self	N/A	N/A
Var 0h	1.04134	1
Var 12h I row2-row1	0.80002	0.565
Var 12h NI row2-row1	N/A	N/A
Var 36h I row2-row1	0.64816	0.575
Var 36h NI row2-row1	0.68019	0.549
Var 60h I row2-row1	1.04016
Var 60h NI row2-row1	0.88547	0.69
Time course 0hI-0hNI	1.07169	0.833
Time course 12hI-12hNI	1.05774	0.818
Time course 36hI-36hNI	1.5338	0.023
Time course 60hI-60hNI	3.21985	0.008

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)	2.33087	0.325
transgenic ySAMdc/azygous control (breaker)	0.43696	0.139
transgenic ySAMdc/azygous control (red)	1.2635	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	2.58864	0.026

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	N/A	N/A

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.05261	1
Manapal/WT (break)	0.90138	1
Manapal/WT (red)	0.79672	0.315