Tomato Functional Genomics Database (TFGD)

Expression of 1-1-2.3.20.17

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.00388	0.823
27DAP/17DAP	0.81928	0.67
39DAP/27DAP	1.12735	0.956
41DAP/39DAP	1.08522	0.967
42DAP/41DAP	1.53579	0.366
43DAP/42DAP	0.90427	0.833
47DAP/43DAP	1.13162	0.825
52DAP/47DAP	1.02132	0.721
57DAP/52DAP	1.3007	0.826

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.00967	0.771
17DAP/reference	1.00004	0.957
27DAP/reference	0.95436	0.457
39DAP/reference	1.06701	0.343
41DAP/reference	1.0674	0.587
42DAP/reference	0.89187	0.02
43DAP/reference	0.94808	0.519
47DAP/reference	0.95893	0.258
52DAP/reference	1.0045	0.73
57DAP/reference	1.1133	0.136

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.86534	0.496
27DAP/17DAP	0.96738	0.919
39DAP/27DAP	1.04659	0.691
41DAP/39DAP	1.23981	0.817
42DAP/41DAP	0.8978	0.617
43DAP/42DAP	1.07281	0.83
47DAP/43DAP	1.80014	0.54
52DAP/47DAP	1.14731	0.73
57DAP/52DAP	1.12994	0.79
57DAP/7DAP	1.31693	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.9908	0.682
17DAP/reference	1.00744	0.693
27DAP/reference	1.06748	0.804
39DAP/reference	0.87295	0.146
41DAP/reference	1.09854	0.539
42DAP/reference	1.02181	0.828
43DAP/reference	1.03888	0.974
47DAP/reference	1.05901	0.514
52DAP/reference	0.969	0.477
57DAP/reference	1.07282	0.438

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.18047	0.213
17DAP/reference	0.98476	0.626
27DAP/reference	0.89333	0.22
39DAP/reference	0.89286	0.132
41DAP/reference	0.88539	0.064
42DAP/reference	0.98692	0.482
43DAP/reference	1.13272	0.453
47DAP/reference	0.89066	0.058
52DAP/reference	1.04656	0.667
57DAP/reference	0.96284	0.338

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.94177	0.362
17DAP/reference	1.00716	0.988
27DAP/reference	1.1095	0.065
39DAP/reference	0.9927	0.693
41DAP/reference	0.98846	0.682
42DAP/reference	0.86086	0.071
43DAP/reference	1.01672	0.858
47DAP/reference	0.99774	0.687
52DAP/reference	1.21797	0.714
57DAP/reference	0.90343	0.203

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.36057	0.496
26DAP/20DAP	1.96864	0.265
34DAP/26DAP	1.08001	1
51DAP/34DAP	2.39033	0.339
52DAP/51DAP	1.23234	0.534
53DAP/52DAP	1.39101	0.121
55DAP/53DAP	1.42416	0.039
57DAP/55DAP	0.97707	0.839
62DAP/57DAP	1.02653	1
68DAP/62DAP	1.12127	0.672
68DAP/14DAP	1.29418	0.17

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.82179	0.399

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	N/A	N/A
Mature Green Tomato/Ripe Tomato	1.15306	0.69
Immature Eggplant/Mature Eggplant	5.43636	0.05
Ripe Pepper/Ripe Tomato	N/A	N/A
Mature Eggplant/Ripe Tomato	N/A	N/A

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	N/A	N/A
1-1-2/M82	N/A	N/A
12-2/M82	N/A	N/A
12-4/M82	N/A	N/A
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	N/A	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	0.94477
6-2/M82	N/A	N/A
6-3/M82	N/A	N/A
7-1/M82	N/A	N/A
7-2/M82	N/A	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	N/A	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	1.28402	0.148

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.87788	1
DC3000/delta hrp 6h	N/A	N/A
DC3000/delta hrp 12h	1.08856	1
DC3000/delta hrp 24h	1.28637	1

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.24022
DC3000 delta B/DC3000 delta AB	0.34661

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	1.83881	0.227

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

hybridization	ratio	FDR (corrected p value)
self-self	0.78831
Var 0h	N/A	N/A
Var 12h I row2-row1	0.6881	0.263
Var 12h NI row2-row1	1.06744	1
Var 36h I row2-row1	1.03236	1
Var 36h NI row2-row1	3.91529	1
Var 60h I row2-row1	0.7263	0.439
Var 60h NI row2-row1	0.72215	0.904
Time course 0hI-0hNI	1.12599	0.662
Time course 12hI-12hNI	1.04219	0.888
Time course 36hI-36hNI	1.09917	0.722
Time course 60hI-60hNI	3.32012	0.009

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)	2.38061	0.455
transgenic ySAMdc/azygous control (breaker)	1.23298	1
transgenic ySAMdc/azygous control (red)	1.01858	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.98038	0.552

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.94672	0.59

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)	1.1907	1
Manapal/WT (red)	0.72882	0.229