Tomato Functional Genomics Database (TFGD)

Expression of 1-1-7.2.9.9

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.85947	0.427
27DAP/17DAP	0.78784	0.33
39DAP/27DAP	0.91471	0.544
41DAP/39DAP	1.28002	0.504
42DAP/41DAP	1.14085	0.767
43DAP/42DAP	1.02604	1
47DAP/43DAP	0.89809	0.652
52DAP/47DAP	1.5111	0.334
57DAP/52DAP	0.90585	0.681

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.35791	0.024
17DAP/reference	1.02642	0.384
27DAP/reference	1.01752	0.806
39DAP/reference	0.93453	0.37
41DAP/reference	0.98541	0.814
42DAP/reference	1.03969	0.219
43DAP/reference	1.03823	0.403
47DAP/reference	0.92218	0.027
52DAP/reference	0.87472	0.089
57DAP/reference	0.89679	0.038

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.98273	0.732
27DAP/17DAP	0.95862	0.854
39DAP/27DAP	0.92371	0.502
41DAP/39DAP	1.04327	0.827
42DAP/41DAP	0.98322	0.812
43DAP/42DAP	0.93967	0.383
47DAP/43DAP	0.98832	0.954
52DAP/47DAP	1.08372	0.734
57DAP/52DAP	1.03704	0.745
57DAP/7DAP	1.10658	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.0159	0.945
17DAP/reference	0.97676	0.389
27DAP/reference	0.87464	0.01
39DAP/reference	0.98379	0.411
41DAP/reference	0.96029	0.259
42DAP/reference	0.93781	0.037
43DAP/reference	0.90214	0.159
47DAP/reference	0.80308	0.168
52DAP/reference	0.8432	0.083
57DAP/reference	0.87074	0.061

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.1061	0.284
17DAP/reference	1.24956	0.01
27DAP/reference	0.98623	0.554
39DAP/reference	0.88539	0.102
41DAP/reference	0.95304	0.226
42DAP/reference	0.89797	0.037
43DAP/reference	1.07306	0.735
47DAP/reference	0.8697	0.015
52DAP/reference	0.88441	0.043
57DAP/reference	1.00354	0.834

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.1158	0.067
17DAP/reference	1.12552	0.212
27DAP/reference	0.93696	0.085
39DAP/reference	0.92542	0.015
41DAP/reference	0.90018	0.023
42DAP/reference	0.88755	0.134
43DAP/reference	0.96657	0.398
47DAP/reference	1.15883	0.023
52DAP/reference	0.92068	0.256
57DAP/reference	1.15921	0.228

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.02523	1
26DAP/20DAP	0.97606	1
34DAP/26DAP	1.00469	1
51DAP/34DAP	0.96303	0.77
52DAP/51DAP	0.99604	1
53DAP/52DAP	0.81941	0.212
55DAP/53DAP	0.94927	0.404
57DAP/55DAP	0.90661	0.644
62DAP/57DAP	1.03498	0.8
68DAP/62DAP	0.98459	0.834
68DAP/14DAP	0.98082	1

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.05406	0.627

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	1.12784	0.417
Mature Green Tomato/Ripe Tomato	1.79548	0.048
Immature Eggplant/Mature Eggplant	0.61724	0.062
Ripe Pepper/Ripe Tomato	1.78321	1
Mature Eggplant/Ripe Tomato	1.09927	1

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.14311	0.742
1-1-2/M82	0.88505	0.958
12-2/M82	0.89081	0.955
12-4/M82	0.96972	1
1-3/M82	1.05831	1
2-1-1/M82	1.26215
2-1/M82	0.40007
2-6/M82	0.94456	1
3-2/M82	0.99772	1
4-1-1/M82	1.08657	1
4-1/M82	0.89671	0.665
4-3-2/M82	1.1495	1
4-3/M82	1.2974	0.268
5-3/M82	1.01272	1
6-2/M82	1.28944
6-3/M82	0.91939	1
7-1/M82	1.05643	0.598
7-2/M82	1.01282	1
9-3-2/M82	1.12185	1

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	N/A	N/A
IL2-6/WTpooled	1.20059	0.584
IL7-5/WTpooled	N/A	N/A
IL7-3/WTpooled	0.82237	0.294
IL12-4/WTpooled	0.97832	1
IL1-4/WTpooled	0.88811	0.834
WT/WTpooled	1.03616	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	0.92573	0.75

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.9438	0.941
DC3000/delta hrp 6h	1.05077	0.857
DC3000/delta hrp 12h	0.98816	1
DC3000/delta hrp 24h	0.96589	0.84

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	0.71556	0.028
DC3000 delta B/DC3000 delta AB	0.83123	0.097

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	0.99045	1
Exp 36h	0.88779	0.661
Exp 60h	0.86527	0.586

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

hybridization	ratio	FDR (corrected p value)
self-self	1.02411	1
Var 0h	0.23276	0.214
Var 12h I row2-row1	0.86443	0.39
Var 12h NI row2-row1	0.9422	0.713
Var 36h I row2-row1	1.05474	1
Var 36h NI row2-row1	1.07941	1
Var 60h I row2-row1	1.19906	0.543
Var 60h NI row2-row1	0.90777	0.932
Time course 0hI-0hNI	1.00715	1
Time course 12hI-12hNI	1.01741	0.861
Time course 36hI-36hNI	0.99223	0.644
Time course 60hI-60hNI	0.5498	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)	1.11048	0.278
transgenic ySAMdc/azygous control (breaker)	1.31923	0.248
transgenic ySAMdc/azygous control (red)	2.04299	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.95879	0.334

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.63968	0.222

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	3.0304	0.087
Manapal/WT (break)	3.27148	0.381
Manapal/WT (red)	5.49306	0.133