Tomato Functional Genomics Database (TFGD)

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Expression of 1-1-4.1.4.13

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.6821	0.09
27DAP/17DAP	0.92091	0.822
39DAP/27DAP	0.96702	0.733
41DAP/39DAP	1.22538	0.758
42DAP/41DAP	1.01467	1
43DAP/42DAP	1.09485	1
47DAP/43DAP	0.91997	0.71
52DAP/47DAP	0.99781	0.865
57DAP/52DAP	1.1298	1

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.96308	0.503
17DAP/reference	1.0417	0.399
27DAP/reference	1.13915	0.106
39DAP/reference	1.05804	0.581
41DAP/reference	1.05544	0.808
42DAP/reference	0.97792	0.359
43DAP/reference	1.06131	0.569
47DAP/reference	1.01443	0.636
52DAP/reference	1.13389	0.43
57DAP/reference	1.08347	0.22

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.82203	0.105
27DAP/17DAP	1.56833	0.034
39DAP/27DAP	0.44097	0.028
41DAP/39DAP	0.87818	0.276
42DAP/41DAP	1.19553	0.143
43DAP/42DAP	1.58975	0.015
47DAP/43DAP	0.86065	0.325
52DAP/47DAP	0.7415	0.136
57DAP/52DAP	0.84967	0.283
57DAP/7DAP	0.69316	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.44906	0.034
17DAP/reference	1.2827	0.015
27DAP/reference	1.34958	0.009
39DAP/reference	1.30823	0.012
41DAP/reference	1.14103	0.325
42DAP/reference	1.2308	0.233
43DAP/reference	1.2034	0.032
47DAP/reference	1.00741	1
52DAP/reference	0.96202	0.332
57DAP/reference	1.11258	0.043

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.15837	0.62
17DAP/reference	1.03465	0.924
27DAP/reference	1.01614	1
39DAP/reference	0.92832	0.281
41DAP/reference	1.15597	0.502
42DAP/reference	1.29863	0.066
43DAP/reference	0.9902	0.681
47DAP/reference	0.99886	0.749
52DAP/reference	0.91228	0.111
57DAP/reference	1.1304	0.363

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.79151	0.017
17DAP/reference	1.20582	0.631
27DAP/reference	1.56339	0.028
39DAP/reference	1.26429	0.018
41DAP/reference	1.18688	0.016
42DAP/reference	1.10847	0.433
43DAP/reference	1.12971	0.205
47DAP/reference	0.96073	0.452
52DAP/reference	1.13401	0.674
57DAP/reference	1.10471	0.511

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.90074	0.997
26DAP/20DAP	3.41091	0.099
34DAP/26DAP	0.60432	0.256
51DAP/34DAP	0.4949	0.049
52DAP/51DAP	1.46799	0.059
53DAP/52DAP	1.19885	0.284
55DAP/53DAP	0.80178	0.034
57DAP/55DAP	0.83038	0.294
62DAP/57DAP	N/A	N/A
68DAP/62DAP	0.94654	0.668
68DAP/14DAP	0.59344	0.121

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.82437	0.079

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	5.78262	0.058
Mature Green Tomato/Ripe Tomato	N/A	N/A
Immature Eggplant/Mature Eggplant	1.05827	0.659
Ripe Pepper/Ripe Tomato	N/A	N/A
Mature Eggplant/Ripe Tomato	11.4991	0.26

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	N/A	N/A
1-1-2/M82	N/A	N/A
12-2/M82	N/A	N/A
12-4/M82	0.91541	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	N/A	N/A
4-3-2/M82	N/A	N/A
4-3/M82	N/A	N/A
5-3/M82	0.81447	N/A
6-2/M82	N/A	N/A
6-3/M82	N/A	N/A
7-1/M82	1.06766	N/A
7-2/M82	N/A	N/A
9-3-2/M82	N/A	N/A

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	1.09584	0.493
IL2-6/WTpooled	1.02848	1
IL7-5/WTpooled	1.60043	0.792
IL7-3/WTpooled	0.61622	0.298
IL12-4/WTpooled	1.19649	0.504
IL1-4/WTpooled	0.90759	0.834
WT/WTpooled	1.06219	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	0.60171	N/A

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	N/A	N/A
DC3000/delta hrp 6h	1.53384	1
DC3000/delta hrp 12h	1.04997	1
DC3000/delta hrp 24h	0.78418	0.052

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.07759	0.556
DC3000 delta B/DC3000 delta AB	0.93542	0.406

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	N/A	N/A
Exp 36h	1.93404	1
Exp 60h	N/A	N/A

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	1.01175	1
Var 12h I row2-row1	N/A	N/A
Var 12h NI row2-row1	N/A	N/A
Var 36h I row2-row1	N/A	N/A
Var 36h NI row2-row1	N/A	N/A
Var 60h I row2-row1	N/A	N/A
Var 60h NI row2-row1	N/A	N/A
Time course 0hI-0hNI	N/A	N/A
Time course 12hI-12hNI	N/A	N/A
Time course 36hI-36hNI	N/A	N/A
Time course 60hI-60hNI	N/A	N/A

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)	0.85233	0.338
transgenic ySAMdc/azygous control (breaker)	1.26809	0.248
transgenic ySAMdc/azygous control (red)	1.09564	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.98258	0.277

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.91915	0.238

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.90694	1
Manapal/WT (break)	0.63564	0.333
Manapal/WT (red)	0.53779	0.181