Tomato Functional Genomics Database (TFGD)

Expression of 1-1-3.3.20.8

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.23557	0.428
27DAP/17DAP	1.43554	0.579
39DAP/27DAP	0.94825	0.663
41DAP/39DAP	1.04024	0.85
42DAP/41DAP	1.06025	1
43DAP/42DAP	1.28132	0.799
47DAP/43DAP	1.55375	0.208
52DAP/47DAP	1.14929	0.794
57DAP/52DAP	1.33201	0.969

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.98834	0.661
17DAP/reference	1.38696	0.014
27DAP/reference	0.97101	0.694
39DAP/reference	1.18929	0.403
41DAP/reference	1.22782	0.102
42DAP/reference	1.04702	0.567
43DAP/reference	0.98284	0.763
47DAP/reference	0.9651	0.418
52DAP/reference	1.28457	0.158
57DAP/reference	1.13295	0.621

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.63885	0.348
27DAP/17DAP	1.16389	0.909
39DAP/27DAP	1.09168	0.707
41DAP/39DAP	1.03847	1
42DAP/41DAP	2.15105	0.225
43DAP/42DAP	0.99026	0.902
47DAP/43DAP	0.86974	0.214
52DAP/47DAP	1.059	0.856
57DAP/52DAP	0.97402	0.742
57DAP/7DAP	1.79129	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.94069	0.296
17DAP/reference	0.93318	0.144
27DAP/reference	0.88804	0.082
39DAP/reference	0.84062	0.049
41DAP/reference	0.75014	0.02
42DAP/reference	0.70873	0.01
43DAP/reference	0.92153	0.126
47DAP/reference	0.84207	0.168
52DAP/reference	0.78383	0.026
57DAP/reference	0.85624	0.118

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.08131	0.597
17DAP/reference	1.02353	0.728
27DAP/reference	0.82123	0.317
39DAP/reference	0.9266	0.33
41DAP/reference	0.76755	0.066
42DAP/reference	1.19235	0.369
43DAP/reference	0.92235	0.414
47DAP/reference	1.16618	0.731
52DAP/reference	1.06691	0.938
57DAP/reference	0.88866	0.259

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.91803	0.077
17DAP/reference	0.90944	0.275
27DAP/reference	0.86648	0.038
39DAP/reference	0.89068	0.018
41DAP/reference	0.88393	0.077
42DAP/reference	0.91276	0.361
43DAP/reference	0.82831	0.095
47DAP/reference	1.18006	0.127
52DAP/reference	1.42586	0.072
57DAP/reference	1.21666	0.316

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.20068	0.47
26DAP/20DAP	0.7935	0.512
34DAP/26DAP	1.36594	1
51DAP/34DAP	1.26064	0.137
52DAP/51DAP	0.78891	0.151
53DAP/52DAP	1.2403	0.334
55DAP/53DAP	0.94715	0.675
57DAP/55DAP	1.38831	0.256
62DAP/57DAP	1.26774	0.303
68DAP/62DAP	0.7202	0.211
68DAP/14DAP	1.1321	0.762

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.03079	0.814

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	0.443	0.11
Mature Green Tomato/Ripe Tomato	0.57995	0.017
Immature Eggplant/Mature Eggplant	1.23884	0.072
Ripe Pepper/Ripe Tomato	0.43641	0.224
Mature Eggplant/Ripe Tomato	0.26415	0.234

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.32115	0.432
1-1-2/M82	1.03658	1
12-2/M82	0.78273	0.74
12-4/M82	1.06561	1
1-3/M82	0.96636	1
2-1-1/M82	1.3956
2-1/M82	1.70697
2-6/M82	1.4158	0.329
3-2/M82	1.19516	1
4-1-1/M82	1.48619	1
4-1/M82	1.04515
4-3-2/M82	1.25092	0.225
4-3/M82	1.61969	1
5-3/M82	0.93641	1
6-2/M82	1.32269
6-3/M82	1.04469	1
7-1/M82	1.28438
7-2/M82	1.15374	0.385
9-3-2/M82	1.25741	1

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	N/A	N/A
IL2-6/WTpooled	1.45538	0.395
IL7-5/WTpooled	N/A	N/A
IL7-3/WTpooled	0.97402	1
IL12-4/WTpooled	1.07623	0.695
IL1-4/WTpooled	1.02321	1
WT/WTpooled	0.99558	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	1.06527	0.853

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.83491
DC3000/delta hrp 6h	0.9892	0.95
DC3000/delta hrp 12h	0.97211	1
DC3000/delta hrp 24h	1.07366	0.467

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.67149
DC3000 delta B/DC3000 delta AB	1.87136	0.089

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	1.0717	1
Exp 36h	1.06448	1
Exp 60h	1.26369	0.215

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

hybridization	ratio	FDR (corrected p value)
self-self	1.01485	1
Var 0h	N/A	N/A
Var 12h I row2-row1	0.96785	0.948
Var 12h NI row2-row1	1.09656	1
Var 36h I row2-row1	1.32209	0.489
Var 36h NI row2-row1	0.9624	0.791
Var 60h I row2-row1	0.7656	0.374
Var 60h NI row2-row1	1.00952	1
Time course 0hI-0hNI	1.05901	0.764
Time course 12hI-12hNI	0.96869	0.738
Time course 36hI-36hNI	1.00087	0.742
Time course 60hI-60hNI	1.39905	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)	0.99554	0.931
transgenic ySAMdc/azygous control (breaker)	1.12337	0.178
transgenic ySAMdc/azygous control (red)	0.94459	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.94741	0.059

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)	1.00327	1
Manapal/WT (break)	0.85841	0.333
Manapal/WT (red)	0.70519	0.181