Tomato Functional Genomics Database (TFGD)

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Expression of 1-1-2.2.12.1

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.77159	0.26
27DAP/17DAP	1.71973	0.437
39DAP/27DAP	0.74138	0.392
41DAP/39DAP	1.12235	0.722
42DAP/41DAP	1.203	0.685
43DAP/42DAP	0.92307	0.867
47DAP/43DAP	1.01468	1
52DAP/47DAP	1.67729	0.216
57DAP/52DAP	0.53885	0.507

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.06947	0.567
17DAP/reference	1.14056	0.047
27DAP/reference	1.23573	0.037
39DAP/reference	0.97468	0.651
41DAP/reference	1.03447	1
42DAP/reference	1.66913	0.006
43DAP/reference	1.04402	0.705
47DAP/reference	0.91964	0.106
52DAP/reference	0.89407	0.183
57DAP/reference	0.84365	0.031

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.10066	1
27DAP/17DAP	0.935	0.58
39DAP/27DAP	1.25416	0.173
41DAP/39DAP	0.94195	0.849
42DAP/41DAP	1.06683	0.935
43DAP/42DAP	1.39475	0.02
47DAP/43DAP	0.91377	0.235
52DAP/47DAP	1.40516	0.249
57DAP/52DAP	2.19848	0.036
57DAP/7DAP	1.57179	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.80119	0.146
17DAP/reference	0.82728	0.024
27DAP/reference	0.91957	0.159
39DAP/reference	0.74128	0.011
41DAP/reference	0.95685	0.341
42DAP/reference	0.98233	0.531
43DAP/reference	1.52752	0.007
47DAP/reference	0.82398	0.101
52DAP/reference	0.80198	0.097
57DAP/reference	1.49482	0.004

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.11735	0.43
17DAP/reference	1.5135	0.01
27DAP/reference	1.09633	0.917
39DAP/reference	1.0029	0.661
41DAP/reference	1.22117	0.513
42DAP/reference	1.09149	0.583
43DAP/reference	1.88702	0.026
47DAP/reference	1.30123	0.013
52DAP/reference	0.9425	0.351
57DAP/reference	1.50934	0.008

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.82284	0.158
17DAP/reference	1.03165	1
27DAP/reference	1.08138	0.357
39DAP/reference	1.12912	0.175
41DAP/reference	1.0679	0.286
42DAP/reference	1.27109	0.246
43DAP/reference	1.33922	0.168
47DAP/reference	1.44444	0.04
52DAP/reference	1.13964	0.583
57DAP/reference	1.11038	0.717

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.15928	0.966
26DAP/20DAP	0.72102	0.223
34DAP/26DAP	1.13565	0.542
51DAP/34DAP	1.35682	0.118
52DAP/51DAP	1.3111	0.041
53DAP/52DAP	0.84534	0.301
55DAP/53DAP	1.27399	0.056
57DAP/55DAP	0.91235	0.694
62DAP/57DAP	47.7518	0.622
68DAP/62DAP	0.8652	0.722
68DAP/14DAP	1.10378	0.739

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.68124	0.02

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	5.00219	0.058
Mature Green Tomato/Ripe Tomato	0.41048	0.017
Immature Eggplant/Mature Eggplant	0.21792	0.058
Ripe Pepper/Ripe Tomato	0.22215	0.224
Mature Eggplant/Ripe Tomato	0.38901	1

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	0.8759	0.883
1-1-2/M82	1.40426	N/A
12-2/M82	1.1744	N/A
12-4/M82	1.30808	0.655
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	0.94238	1
3-2/M82	0.72972	N/A
4-1-1/M82	N/A	N/A
4-1/M82	1.15707	1
4-3-2/M82	0.72605	0.698
4-3/M82	0.72792	N/A
5-3/M82	0.71309	0.447
6-2/M82	N/A	N/A
6-3/M82	N/A	N/A
7-1/M82	1.07213	N/A
7-2/M82	0.91902	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	0.86284	N/A
IL7-5/WTpooled	N/A	N/A
IL7-3/WTpooled	0.89259	0.418
IL12-4/WTpooled	2.152	0.673
IL1-4/WTpooled	0.93084	0.562
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	1.0634	0.853

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.12199	0.692
DC3000/delta hrp 6h	N/A	N/A
DC3000/delta hrp 12h	1.11438	1
DC3000/delta hrp 24h	1.05457	0.71

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	0.63872	N/A

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	0.91215	1
Exp 36h	N/A	N/A
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	1.04087	1
Var 0h	0.93156	1
Var 12h I row2-row1	0.99297	1
Var 12h NI row2-row1	0.81694	0.488
Var 36h I row2-row1	0.90069	1
Var 36h NI row2-row1	1.41314	0.482
Var 60h I row2-row1	1.07988	0.502
Var 60h NI row2-row1	1.08144	0.904
Time course 0hI-0hNI	0.97893	0.934
Time course 12hI-12hNI	0.993	1
Time course 36hI-36hNI	1.0171	0.722
Time course 60hI-60hNI	0.62755	0.006

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)	1.09629	0.541
transgenic ySAMdc/azygous control (breaker)	0.53041	0.139
transgenic ySAMdc/azygous control (red)	1.68106	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.00557	0.811

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.64668	0.238

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.81851	1
Manapal/WT (break)	0.69353	1
Manapal/WT (red)	1.31031	1