Tomato Functional Genomics Database (TFGD)

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Expression of 1-1-2.3.16.10

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.05352	0.863
27DAP/17DAP	1.84214	0.735
39DAP/27DAP	0.99284	0.782
41DAP/39DAP	0.94916	0.811
42DAP/41DAP	0.99475	1
43DAP/42DAP	1.25486	0.869
47DAP/43DAP	0.88749	0.625
52DAP/47DAP	1.42698	0.506
57DAP/52DAP	1.69437	0.92

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.19125	0.278
17DAP/reference	1.10625	0.355
27DAP/reference	1.15144	0.405
39DAP/reference	0.94793	0.5
41DAP/reference	1.0107	1
42DAP/reference	0.86618	0.011
43DAP/reference	0.94321	0.259
47DAP/reference	0.96395	0.392
52DAP/reference	0.92442	0.189
57DAP/reference	1.02219	0.876

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.9679	0.679
27DAP/17DAP	0.74846	0.418
39DAP/27DAP	1.03949	0.77
41DAP/39DAP	1.12661	0.827
42DAP/41DAP	0.74774	0.079
43DAP/42DAP	1.11411	0.297
47DAP/43DAP	1.62334	0.593
52DAP/47DAP	0.89111	0.677
57DAP/52DAP	1.13237	0.79
57DAP/7DAP	1.85172	0.365

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.07294	0.377
17DAP/reference	1.13792	0.574
27DAP/reference	1.22927	0.197
39DAP/reference	0.99369	0.64
41DAP/reference	0.96864	0.512
42DAP/reference	1.00766	0.713
43DAP/reference	1.00094	0.608
47DAP/reference	1.04635	0.837
52DAP/reference	0.95	0.363
57DAP/reference	1.2172	0.012

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.15579	0.33
17DAP/reference	0.99331	0.673
27DAP/reference	0.87804	0.257
39DAP/reference	0.83009	0.022
41DAP/reference	0.94317	0.226
42DAP/reference	1.01769	1
43DAP/reference	0.97284	0.561
47DAP/reference	0.91948	0.173
52DAP/reference	1.14032	0.417
57DAP/reference	1.31768	0.068

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.18454	0.167
17DAP/reference	1.2505	0.436
27DAP/reference	1.34573	0.028
39DAP/reference	1.10509	0.182
41DAP/reference	0.87552	0.185
42DAP/reference	0.92465	0.287
43DAP/reference	1.17858	0.175
47DAP/reference	0.89041	0.286
52DAP/reference	1.00735	0.871
57DAP/reference	0.86199	0.149

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.751	0.997
26DAP/20DAP	0.76991	1
34DAP/26DAP	0.67309	0.596
51DAP/34DAP	0.39665	N/A
52DAP/51DAP	0.85677	N/A
53DAP/52DAP	0.54453	0.21
55DAP/53DAP	0.93043	0.775
57DAP/55DAP	1.01425	0.938
62DAP/57DAP	0.7233	0.162
68DAP/62DAP	1.085	1
68DAP/14DAP	0.71249	N/A

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.83051	0.439

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	N/A	N/A
Mature Green Tomato/Ripe Tomato	N/A	N/A
Immature Eggplant/Mature Eggplant	N/A	N/A
Ripe Pepper/Ripe Tomato	0.43378	0.224
Mature Eggplant/Ripe Tomato	0.5837	0.234

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	0.76487	0.907
1-1-2/M82	0.93229	1
12-2/M82	N/A	N/A
12-4/M82	1.0056	N/A
1-3/M82	1.06876	N/A
2-1-1/M82	1.34483	N/A
2-1/M82	N/A	N/A
2-6/M82	1.00001	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	1.17028	0.378
6-2/M82	N/A	N/A
6-3/M82	1.17848	N/A
7-1/M82	N/A	N/A
7-2/M82	0.83562	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	N/A	N/A
IL2-6/WTpooled	N/A	N/A
IL7-5/WTpooled	0.87893	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	1.39216	0.853

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.84449	0.868
DC3000/delta hrp 6h	N/A	N/A
DC3000/delta hrp 12h	1.09892	1
DC3000/delta hrp 24h	1.21528	0.107

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	N/A	N/A
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	N/A	N/A
Exp 36h	1.37092	1
Exp 60h	1.36942	0.399

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

hybridization	ratio	FDR (corrected p value)
self-self	1.03715	N/A
Var 0h	1.36799	0.782
Var 12h I row2-row1	1.01274	1
Var 12h NI row2-row1	0.70185	0.649
Var 36h I row2-row1	0.67567	1
Var 36h NI row2-row1	0.68502	1
Var 60h I row2-row1	0.94819	0.952
Var 60h NI row2-row1	0.62989	0.408
Time course 0hI-0hNI	0.91165	0.634
Time course 12hI-12hNI	0.99784	1
Time course 36hI-36hNI	1.20414	0.19
Time course 60hI-60hNI	1.0337	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)	1.34255	0.748
transgenic ySAMdc/azygous control (breaker)	1.14583	1
transgenic ySAMdc/azygous control (red)	0.90107	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.93998	0.07

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.13566	1

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	N/A	N/A
Manapal/WT (break)	1.04205	1
Manapal/WT (red)	1.01269	1