Tomato Functional Genomics Database (TFGD)

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Expression of 1-1-7.4.15.21

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.99367	0.823
27DAP/17DAP	1.27603	0.877
39DAP/27DAP	0.88779	0.544
41DAP/39DAP	0.68148	0.13
42DAP/41DAP	1.03324	0.978
43DAP/42DAP	0.94617	0.89
47DAP/43DAP	1.69026	0.196
52DAP/47DAP	0.88437	0.688
57DAP/52DAP	1.2722	0.935

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.17562	0.075
17DAP/reference	1.10073	0.096
27DAP/reference	1.11384	0.125
39DAP/reference	1.2943	0.014
41DAP/reference	1.12732	0.287
42DAP/reference	1.09034	0.113
43DAP/reference	1.05096	0.73
47DAP/reference	1.08759	0.509
52DAP/reference	1.12368	0.388
57DAP/reference	0.86813	0.02

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.47839	0.334
27DAP/17DAP	1.10273	0.518
39DAP/27DAP	0.86669	0.382
41DAP/39DAP	1.17875	0.355
42DAP/41DAP	0.82797	0.14
43DAP/42DAP	0.96052	0.665
47DAP/43DAP	1.09157	0.865
52DAP/47DAP	0.91224	0.372
57DAP/52DAP	1.17426	0.627
57DAP/7DAP	1.18044	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.83176	0.157
17DAP/reference	0.86735	0.124
27DAP/reference	1.18782	0.197
39DAP/reference	0.77658	0.039
41DAP/reference	0.8811	0.194
42DAP/reference	0.88288	0.151
43DAP/reference	0.8281	0.23
47DAP/reference	0.94913	0.504
52DAP/reference	0.85218	0.066
57DAP/reference	0.76615	0.059

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.06255	0.812
17DAP/reference	0.98789	0.561
27DAP/reference	1.32759	0.089
39DAP/reference	1.27566	0.132
41DAP/reference	1.34228	0.033
42DAP/reference	1.45986	0.038
43DAP/reference	1.50864	0.025
47DAP/reference	1.06876	0.795
52DAP/reference	1.0992	0.471
57DAP/reference	1.0016	1

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.89635	0.112
17DAP/reference	1.13622	0.638
27DAP/reference	0.92813	0.319
39DAP/reference	0.70454	0.01
41DAP/reference	0.99589	0.618
42DAP/reference	1.13324	0.68
43DAP/reference	0.9877	0.568
47DAP/reference	1.23623	0.085
52DAP/reference	1.43942	0.609
57DAP/reference	1.11836	0.481

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.59339	0.52
26DAP/20DAP	1.16306	0.931
34DAP/26DAP	1.19545	0.819
51DAP/34DAP	0.97506	0.799
52DAP/51DAP	0.87134	1
53DAP/52DAP	1.18366	0.697
55DAP/53DAP	0.94275	0.619
57DAP/55DAP	0.96277	0.783
62DAP/57DAP	1.00116	1
68DAP/62DAP	1.13887	0.991
68DAP/14DAP	0.9953	1

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.71913	0.05

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	1.02669	0.666
Mature Green Tomato/Ripe Tomato	1.4818	0.185
Immature Eggplant/Mature Eggplant	1.11777	0.278
Ripe Pepper/Ripe Tomato	1.98946	1
Mature Eggplant/Ripe Tomato	0.84761	1

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.27756	0.877
1-1-2/M82	1.14286	1
12-2/M82	0.74726	0.955
12-4/M82	1.03633	N/A
1-3/M82	1.12005	0.248
2-1-1/M82	1.0173	0.764
2-1/M82	N/A	N/A
2-6/M82	0.80237	0.501
3-2/M82	1.64414	0.549
4-1-1/M82	1.0535	N/A
4-1/M82	N/A	N/A
4-3-2/M82	1.18267	1
4-3/M82	1.73922	1
5-3/M82	0.97563	1
6-2/M82	1.46328	0.235
6-3/M82	N/A	N/A
7-1/M82	1.18087	N/A
7-2/M82	1.06819	N/A
9-3-2/M82	1.20479	N/A

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	N/A	N/A
IL2-6/WTpooled	1.57432	0.395
IL7-5/WTpooled	N/A	N/A
IL7-3/WTpooled	0.76027	N/A
IL12-4/WTpooled	1.31855	0.504
IL1-4/WTpooled	1.12354	1
WT/WTpooled	1.0598	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	0.90697	0.975

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.09358	0.921
DC3000/delta hrp 6h	0.95919	0.95
DC3000/delta hrp 12h	1.07176	1
DC3000/delta hrp 24h	1.26982	0.088

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	0.39438	N/A
DC3000 delta B/DC3000 delta AB	1.76927	N/A

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	0.86487	1
Exp 36h	1.00339	0.879
Exp 60h	0.98581	0.994

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

hybridization	ratio	FDR (corrected p value)
self-self	1.03722	1
Var 0h	N/A	N/A
Var 12h I row2-row1	0.80065	0.565
Var 12h NI row2-row1	1.09128	1
Var 36h I row2-row1	1.59062	1
Var 36h NI row2-row1	1.19349	1
Var 60h I row2-row1	1.18066	0.562
Var 60h NI row2-row1	0.98088	1
Time course 0hI-0hNI	1.07369	0.764
Time course 12hI-12hNI	0.96905	0.698
Time course 36hI-36hNI	0.84758	0.033
Time course 60hI-60hNI	0.67346	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)	1.05715	0.571
transgenic ySAMdc/azygous control (breaker)	0.72245	0.142
transgenic ySAMdc/azygous control (red)	1.04642	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.98394	0.362

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.39463	0.239

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.69814	0.172
Manapal/WT (break)	0.85999	1
Manapal/WT (red)	1.24948	0.222