Tomato Functional Genomics Database (TFGD)

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Expression of 1-1-2.1.13.10

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.41914	0.272
27DAP/17DAP	1.2174	0.766
39DAP/27DAP	0.90128	0.487
41DAP/39DAP	0.79485	0.222
42DAP/41DAP	1.12599	0.825
43DAP/42DAP	0.94441	0.867
47DAP/43DAP	1.21811	0.618
52DAP/47DAP	0.86509	0.618
57DAP/52DAP	1.18921	0.826

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.87394	0.098
17DAP/reference	1.07649	0.282
27DAP/reference	1.13554	0.339
39DAP/reference	1.13065	0.074
41DAP/reference	1.04892	0.587
42DAP/reference	0.85165	0.003
43DAP/reference	0.9323	0.377
47DAP/reference	0.96173	0.242
52DAP/reference	0.93679	0.189
57DAP/reference	0.95087	0.165

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.49976	0.038
27DAP/17DAP	0.72603	0.121
39DAP/27DAP	1.58855	0.062
41DAP/39DAP	0.92694	0.793
42DAP/41DAP	1.10558	0.415
43DAP/42DAP	0.75973	0.025
47DAP/43DAP	0.82854	0.039
52DAP/47DAP	0.86981	0.254
57DAP/52DAP	1.64532	0.029
57DAP/7DAP	0.8689	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.08269	0.325
17DAP/reference	0.86916	0.082
27DAP/reference	0.97	0.375
39DAP/reference	1.43519	0.009
41DAP/reference	1.11235	0.26
42DAP/reference	1.08456	0.405
43DAP/reference	1.31792	0.016
47DAP/reference	1.16784	0.214
52DAP/reference	1.15507	0.013
57DAP/reference	1.38088	0.035

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.94458	0.503
17DAP/reference	0.81072	0.17
27DAP/reference	1.16957	0.629
39DAP/reference	0.97177	0.442
41DAP/reference	1.18054	0.209
42DAP/reference	1.01149	0.655
43DAP/reference	0.92379	0.344
47DAP/reference	0.99717	0.66
52DAP/reference	0.85301	0.043
57DAP/reference	0.82534	0.156

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.03238	0.793
17DAP/reference	0.89838	0.358
27DAP/reference	0.9662	0.416
39DAP/reference	1.01349	0.962
41DAP/reference	0.88486	0.148
42DAP/reference	0.78741	0.036
43DAP/reference	1.07786	0.541
47DAP/reference	0.8431	0.139
52DAP/reference	1.00883	1
57DAP/reference	1.02706	0.878

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.96692	1
26DAP/20DAP	0.23111	N/A
34DAP/26DAP	1.12155	1
51DAP/34DAP	1.35086	0.535
52DAP/51DAP	1.08818	0.792
53DAP/52DAP	2.43625	0.149
55DAP/53DAP	1.06177	1
57DAP/55DAP	1.18932	N/A
62DAP/57DAP	0.99297	1
68DAP/62DAP	0.95993	0.81
68DAP/14DAP	1.13327	0.802

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	4.33089	0.018

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	N/A	N/A
Mature Green Tomato/Ripe Tomato	1.6501	0.024
Immature Eggplant/Mature Eggplant	N/A	N/A
Ripe Pepper/Ripe Tomato	0.09859	0.224
Mature Eggplant/Ripe Tomato	0.12103	0.234

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	0.61898	0.56
1-1-2/M82	1.13132	1
12-2/M82	0.90078	N/A
12-4/M82	0.77339	0.619
1-3/M82	1.2282	N/A
2-1-1/M82	0.78885	0.92
2-1/M82	0.67198	0.322
2-6/M82	1.38542	0.452
3-2/M82	1.12108	N/A
4-1-1/M82	1.07748	N/A
4-1/M82	N/A	N/A
4-3-2/M82	0.81024	N/A
4-3/M82	0.98139	1
5-3/M82	0.67989	0.642
6-2/M82	1.42618	N/A
6-3/M82	1.26447	1
7-1/M82	1.39875	0.598
7-2/M82	0.85607	0.881
9-3-2/M82	1.06164	N/A

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	0.95321	0.321
IL2-6/WTpooled	1.13847	1
IL7-5/WTpooled	1.03824	1
IL7-3/WTpooled	1.1071	1
IL12-4/WTpooled	1.16737	0.553
IL1-4/WTpooled	0.89239	0.699
WT/WTpooled	1.13577	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	1.03422	1

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.15204	0.25
DC3000/delta hrp 6h	0.98363	0.95
DC3000/delta hrp 12h	0.9236	1
DC3000/delta hrp 24h	0.86258	0.464

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	0.86502	N/A

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	1.36614	1
Exp 36h	0.86263	0.82
Exp 60h	1.38614	0.283

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	0.87642	0.457
Var 12h I row2-row1	N/A	N/A
Var 12h NI row2-row1	N/A	N/A
Var 36h I row2-row1	1.11249	0.309
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	2.30081	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)	1.01499	0.863
transgenic ySAMdc/azygous control (breaker)	0.61662	0.173
transgenic ySAMdc/azygous control (red)	1.12019	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.03143	0.395

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.63982	0.238

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.91701	1
Manapal/WT (break)	1.77898	1
Manapal/WT (red)	2.21064	0.134