Tomato Functional Genomics Database (TFGD)

Expression of 1-1-3.1.16.6

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.00224	0.961
27DAP/17DAP	1.09526	0.859
39DAP/27DAP	0.96414	0.719
41DAP/39DAP	1.28432	0.284
42DAP/41DAP	1.10892	0.941
43DAP/42DAP	0.89923	0.813
47DAP/43DAP	1.29302	0.223
52DAP/47DAP	0.92212	0.758
57DAP/52DAP	0.86703	0.67

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.90541	0.109
17DAP/reference	1.04742	0.355
27DAP/reference	0.99067	0.725
39DAP/reference	1.05838	0.262
41DAP/reference	1.12028	0.122
42DAP/reference	1.01453	0.842
43DAP/reference	1.19144	0.014
47DAP/reference	1.30281	0.001
52DAP/reference	1.07303	0.576
57DAP/reference	1.00762	1

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.95816	0.496
27DAP/17DAP	1.01279	0.988
39DAP/27DAP	1.06465	0.519
41DAP/39DAP	1.1059	0.883
42DAP/41DAP	0.95802	0.666
43DAP/42DAP	1.08931	0.192
47DAP/43DAP	1.01038	0.951
52DAP/47DAP	1.02051	0.933
57DAP/52DAP	1.0064	1
57DAP/7DAP	1.23126	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.93003	0.122
17DAP/reference	0.91831	0.031
27DAP/reference	0.8932	0.019
39DAP/reference	1.01257	0.601
41DAP/reference	0.95639	0.194
42DAP/reference	0.92111	0.1
43DAP/reference	0.96512	0.266
47DAP/reference	0.96071	0.504
52DAP/reference	0.95629	0.254
57DAP/reference	1.0128	1

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.97424	0.688
17DAP/reference	0.96738	0.447
27DAP/reference	0.85851	0.056
39DAP/reference	0.85077	0.091
41DAP/reference	0.8248	0.048
42DAP/reference	0.82785	0.073
43DAP/reference	1.03211	0.899
47DAP/reference	0.95074	0.05
52DAP/reference	0.96399	0.327
57DAP/reference	1.03526	0.848

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.90951	0.087
17DAP/reference	0.97172	0.636
27DAP/reference	0.85077	0.021
39DAP/reference	0.86934	0.021
41DAP/reference	0.92432	0.167
42DAP/reference	0.85988	0.025
43DAP/reference	0.89397	0.158
47DAP/reference	1.47246	0.009
52DAP/reference	1.33831	0.509
57DAP/reference	1.13478	0.401

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.81081	1
26DAP/20DAP	0.95028	0.512
34DAP/26DAP	1.07224	1
51DAP/34DAP	0.86724	0.298
52DAP/51DAP	1.01836	0.86
53DAP/52DAP	1.09231	0.623
55DAP/53DAP	0.98134	0.852
57DAP/55DAP	0.9345	0.698
62DAP/57DAP	1.07229	1
68DAP/62DAP	0.76114	0.152
68DAP/14DAP	0.88782	0.375

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.90597	0.224

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	0.43699	0.086
Mature Green Tomato/Ripe Tomato	0.89796	0.377
Immature Eggplant/Mature Eggplant	1.18705	0.096
Ripe Pepper/Ripe Tomato	0.51546	0.293
Mature Eggplant/Ripe Tomato	1.04887	1

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.1116	0.486
1-1-2/M82	0.97583
12-2/M82	N/A	N/A
12-4/M82	1.06052	0.611
1-3/M82	1.14048
2-1-1/M82	N/A	N/A
2-1/M82	N/A	N/A
2-6/M82	1.11481
3-2/M82	1.00252
4-1-1/M82	1.3254
4-1/M82	0.5491
4-3-2/M82	0.92317
4-3/M82	1.13795	0.268
5-3/M82	1.11311	1
6-2/M82	N/A	N/A
6-3/M82	N/A	N/A
7-1/M82	0.86775
7-2/M82	1.19368
9-3-2/M82	0.78328	0.449

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	N/A	N/A
IL2-6/WTpooled	0.9677	1
IL7-5/WTpooled	N/A	N/A
IL7-3/WTpooled	1.08964	1
IL12-4/WTpooled	1.06014	0.785
IL1-4/WTpooled	1.02298
WT/WTpooled	1.08995	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	0.9491	1

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.93397	1
DC3000/delta hrp 6h	1.11175	1
DC3000/delta hrp 12h	1.06247	1
DC3000/delta hrp 24h	0.90597	0.241

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.03346	0.598
DC3000 delta B/DC3000 delta AB	1.04603	0.687

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	0.80983	1
Exp 36h	1.33839	0.693
Exp 60h	1.27968	0.563

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

hybridization	ratio	FDR (corrected p value)
self-self	0.99572	1
Var 0h	0.72204	1
Var 12h I row2-row1	1.05302	0.654
Var 12h NI row2-row1	0.8521	0.488
Var 36h I row2-row1	0.86638	0.575
Var 36h NI row2-row1	0.85343	0.522
Var 60h I row2-row1	1.60189	0.562
Var 60h NI row2-row1	1.38427	0.904
Time course 0hI-0hNI	1.11732	0.719
Time course 12hI-12hNI	1.04991	0.773
Time course 36hI-36hNI	0.97758	0.504
Time course 60hI-60hNI	1.14319	0.047

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)	0.92074	0.299
transgenic ySAMdc/azygous control (breaker)	0.80141	0.173
transgenic ySAMdc/azygous control (red)	1.03587	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.04816	0.213

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.0546	1

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.80662	1
Manapal/WT (break)	0.95901	1
Manapal/WT (red)	0.89237	0.503