Tomato Functional Genomics Database (TFGD)

Expression of 1-1-6.3.13.8

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.14283	0.977
27DAP/17DAP	1.35995	0.732
39DAP/27DAP	1.13591	0.974
41DAP/39DAP	1.95286	0.53
42DAP/41DAP	0.9932	1
43DAP/42DAP	0.88081	0.773
47DAP/43DAP	0.98901	0.828
52DAP/47DAP	1.26904	0.584
57DAP/52DAP	0.85454	0.783

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.81892	0.028
17DAP/reference	0.91197	0.194
27DAP/reference	1.00475	0.867
39DAP/reference	0.98785	0.797
41DAP/reference	0.93636	0.341
42DAP/reference	0.87209	0.01
43DAP/reference	0.92709	0.331
47DAP/reference	0.98165	0.473
52DAP/reference	0.89831	0.177
57DAP/reference	1.11302	0.478

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.98989	0.782
27DAP/17DAP	1.07293	0.859
39DAP/27DAP	1.09438	0.623
41DAP/39DAP	1.15486	0.921
42DAP/41DAP	0.80984	0.106
43DAP/42DAP	0.83437	0.293
47DAP/43DAP	1.05972	0.973
52DAP/47DAP	0.96865	0.893
57DAP/52DAP	1.17006	0.513
57DAP/7DAP	1.18832	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.02177	1
17DAP/reference	1.25205	0.07
27DAP/reference	1.09366	0.301
39DAP/reference	1.20012	0.333
41DAP/reference	1.22559	0.042
42DAP/reference	1.46325	0.014
43DAP/reference	1.10495	0.132
47DAP/reference	0.8937	0.128
52DAP/reference	1.08978	0.491
57DAP/reference	1.02578	1

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.32881	0.196
17DAP/reference	0.88172	0.046
27DAP/reference	0.91219	0.229
39DAP/reference	0.93623	0.11
41DAP/reference	0.95305	0.103
42DAP/reference	1.01762	1
43DAP/reference	0.95019	0.43
47DAP/reference	1.0485	0.775
52DAP/reference	0.98585	0.537
57DAP/reference	0.99797	0.834

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.92677	0.29
17DAP/reference	1.08433	0.578
27DAP/reference	1.22373	0.125
39DAP/reference	1.1413	0.218
41DAP/reference	1.18276	0.134
42DAP/reference	1.0491	0.818
43DAP/reference	0.92281	0.197
47DAP/reference	0.94297	0.325
52DAP/reference	1.03911	0.876
57DAP/reference	1.07882	0.539

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.08418	0.966
26DAP/20DAP	0.90187	1
34DAP/26DAP	1.18572	1
51DAP/34DAP	1.08784	0.978
52DAP/51DAP	1.08387	0.848
53DAP/52DAP	8.27773	0.608
55DAP/53DAP	1.14515	0.614
57DAP/55DAP	0.98731	0.821
62DAP/57DAP	1.21475	0.902
68DAP/62DAP	0.93498	0.81
68DAP/14DAP	1.41489	0.636

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	2.62457	0.415

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	0.52478
Mature Green Tomato/Ripe Tomato	0.9355	0.569
Immature Eggplant/Mature Eggplant	N/A	N/A
Ripe Pepper/Ripe Tomato	41.3614	1
Mature Eggplant/Ripe Tomato	N/A	N/A

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	0.99217	0.961
1-1-2/M82	1.22642
12-2/M82	1.33743	1
12-4/M82	0.98657	1
1-3/M82	0.82904	0.441
2-1-1/M82	1.06443
2-1/M82	N/A	N/A
2-6/M82	0.9124	1
3-2/M82	0.97576
4-1-1/M82	0.90079	1
4-1/M82	0.7964	1
4-3-2/M82	0.79591	1
4-3/M82	0.84814	0.72
5-3/M82	0.96526	1
6-2/M82	0.73265	0.481
6-3/M82	1.02075	1
7-1/M82	N/A	N/A
7-2/M82	0.97967	1
9-3-2/M82	0.82135	0.449

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	N/A	N/A
IL2-6/WTpooled	1.02786	0.788
IL7-5/WTpooled	N/A	N/A
IL7-3/WTpooled	1.04192	1
IL12-4/WTpooled	0.98194	1
IL1-4/WTpooled	0.84571	0.834
WT/WTpooled	1.09217	0.999

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	0.89662	0.497

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.15401	0.894
DC3000/delta hrp 6h	1.3337
DC3000/delta hrp 12h	1.18676	1
DC3000/delta hrp 24h	0.93964	0.564

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	N/A	N/A
Exp 60h	1.40354	1

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

hybridization	ratio	FDR (corrected p value)
self-self	1.0569	1
Var 0h	1.04336	0.594
Var 12h I row2-row1	1.0415	0.692
Var 12h NI row2-row1	0.71334	0.713
Var 36h I row2-row1	0.69008	1
Var 36h NI row2-row1	0.92432	0.584
Var 60h I row2-row1	1.20721	0.543
Var 60h NI row2-row1	0.93705	1
Time course 0hI-0hNI	1.11919	0.451
Time course 12hI-12hNI	0.96195	0.719
Time course 36hI-36hNI	0.88119	0.034
Time course 60hI-60hNI	1.0308	1

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)	1.05258	0.863
transgenic ySAMdc/azygous control (breaker)	1.5277	0.166
transgenic ySAMdc/azygous control (red)	1.2354	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.01407	0.448

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.8197	0.238

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.30555	0.307
Manapal/WT (break)	0.9432	1
Manapal/WT (red)	1.03914	1