Tomato Functional Genomics Database (TFGD)

Expression of 1-1-4.2.9.9

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.99768	0.847
27DAP/17DAP	0.87404	0.708
39DAP/27DAP	1.03618	0.782
41DAP/39DAP	0.93178	0.715
42DAP/41DAP	1.23563	0.743
43DAP/42DAP	1.19766	0.728
47DAP/43DAP	0.88701	0.613
52DAP/47DAP	0.84549	0.579
57DAP/52DAP	0.72751	0.622

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.17683	0.303
17DAP/reference	0.97575	0.503
27DAP/reference	1.13664	0.03
39DAP/reference	1.15537	0.066
41DAP/reference	1.28909	0.133
42DAP/reference	1.41253	0.001
43DAP/reference	1.33562	0.111
47DAP/reference	1.39761	0.003
52DAP/reference	1.27288	0.031
57DAP/reference	1.07723	0.366

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.82782	0.201
27DAP/17DAP	0.92795	0.724
39DAP/27DAP	0.85744	0.113
41DAP/39DAP	0.88013	0.434
42DAP/41DAP	1.07151	0.601
43DAP/42DAP	1.53546	0.02
47DAP/43DAP	0.87478	0.332
52DAP/47DAP	0.94061	0.899
57DAP/52DAP	0.82022	0.137
57DAP/7DAP	0.4744	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.18766	0.117
17DAP/reference	1.17212	0.013
27DAP/reference	1.06784	0.246
39DAP/reference	1.04847	0.538
41DAP/reference	0.86782	0.09
42DAP/reference	1.01401	1
43DAP/reference	0.8653	0.031
47DAP/reference	1.05073	0.804
52DAP/reference	0.85836	0.077
57DAP/reference	0.90161	0.183

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.03037	0.951
17DAP/reference	1.17806	0.264
27DAP/reference	1.10285	0.352
39DAP/reference	1.19122	0.09
41DAP/reference	1.06222	0.781
42DAP/reference	1.2738	0.195
43DAP/reference	1.22114	0.611
47DAP/reference	1.10183	0.153
52DAP/reference	1.0444	0.882
57DAP/reference	0.96672	0.408

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.76346	0.019
17DAP/reference	1.20357	0.298
27DAP/reference	1.17525	0.164
39DAP/reference	1.03681	0.711
41DAP/reference	1.04778	0.674
42DAP/reference	1.26629	0.076
43DAP/reference	1.43444	0.047
47DAP/reference	1.35752	0.006
52DAP/reference	1.37818	0.061
57DAP/reference	1.31769	0.031

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.93072	1
26DAP/20DAP	0.96329	1
34DAP/26DAP	1.01664	1
51DAP/34DAP	0.78684	0.161
52DAP/51DAP	0.94603	1
53DAP/52DAP	0.92109	0.723
55DAP/53DAP	0.78863	0.489
57DAP/55DAP	0.76211	0.217
62DAP/57DAP	0.99782	0.994
68DAP/62DAP	1.39193	0.448
68DAP/14DAP	0.87017	0.375

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.34701	0.029

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	0.70504	0.188
Mature Green Tomato/Ripe Tomato	1.49621	0.814
Immature Eggplant/Mature Eggplant	0.96856	1
Ripe Pepper/Ripe Tomato	0.54414	0.224
Mature Eggplant/Ripe Tomato	0.34009	0.234

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	0.80633
1-1-2/M82	1.53585
12-2/M82	N/A	N/A
12-4/M82	1.00796	1
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	1.43031
4-1/M82	1.03943
4-3-2/M82	1.20497	0.508
4-3/M82	N/A	N/A
5-3/M82	1.05748	1
6-2/M82	N/A	N/A
6-3/M82	N/A	N/A
7-1/M82	0.84234
7-2/M82	N/A	N/A
9-3-2/M82	1.25913	1

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	1.22239	0.277
IL2-6/WTpooled	1.26755	0.531
IL7-5/WTpooled	1.35794	0.792
IL7-3/WTpooled	0.87109	0.418
IL12-4/WTpooled	0.88669	1
IL1-4/WTpooled	1.05737	1
WT/WTpooled	0.9959	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	1.04502	1

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.96494	1
DC3000/delta hrp 6h	1.15514	1
DC3000/delta hrp 12h	1.28968	1
DC3000/delta hrp 24h	0.78321	0.152

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	0.73157	0.031
DC3000 delta B/DC3000 delta AB	0.75194	0.036

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	0.93718	1
Exp 36h	0.77272	0.419
Exp 60h	0.82324	0.454

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

hybridization	ratio	FDR (corrected p value)
self-self	1.01309	1
Var 0h	0.80151	0.457
Var 12h I row2-row1	0.75206	0.318
Var 12h NI row2-row1	0.94227	0.488
Var 36h I row2-row1	1.07991	0.601
Var 36h NI row2-row1	1.14457	1
Var 60h I row2-row1	0.89179	0.285
Var 60h NI row2-row1	1.02383	1
Time course 0hI-0hNI	0.98592	0.97
Time course 12hI-12hNI	0.99993	1
Time course 36hI-36hNI	0.91897	0.089
Time course 60hI-60hNI	0.35581	0.005

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)	0.97562	0.567
transgenic ySAMdc/azygous control (breaker)	0.98232	1
transgenic ySAMdc/azygous control (red)	1.1047	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.04975	0.185

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.01249	1

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.24224	0.096
Manapal/WT (break)	1.01182	1
Manapal/WT (red)	1.10475	1