Tomato Functional Genomics Database (TFGD)

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Expression of 1-1-7.3.18.1

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.95365	0.689
27DAP/17DAP	1.46209	0.859
39DAP/27DAP	1.17311	0.946
41DAP/39DAP	1.10253	0.67
42DAP/41DAP	0.82769	0.774
43DAP/42DAP	0.99471	0.925
47DAP/43DAP	1.15315	0.68
52DAP/47DAP	1.32656	0.521
57DAP/52DAP	1.0742	0.983

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.96099	0.455
17DAP/reference	1.10544	0.1
27DAP/reference	0.9803	0.642
39DAP/reference	1.05978	0.639
41DAP/reference	0.97218	0.542
42DAP/reference	0.91916	0.054
43DAP/reference	0.77638	0.021
47DAP/reference	0.99167	0.568
52DAP/reference	0.84432	0.084
57DAP/reference	0.82156	0.031

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.90129	0.311
27DAP/17DAP	0.99322	0.943
39DAP/27DAP	1.09456	0.519
41DAP/39DAP	1.00661	1
42DAP/41DAP	1.0761	0.694
43DAP/42DAP	1.0802	0.513
47DAP/43DAP	0.92039	0.29
52DAP/47DAP	1.12906	0.558
57DAP/52DAP	0.97885	0.753
57DAP/7DAP	1.08018	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.88344	0.072
17DAP/reference	0.76432	0.031
27DAP/reference	0.95698	0.402
39DAP/reference	0.8129	0.146
41DAP/reference	0.83199	0.054
42DAP/reference	0.61563	0.034
43DAP/reference	0.83518	0.025
47DAP/reference	0.71178	0.066
52DAP/reference	0.86378	0.072
57DAP/reference	0.83493	0.026

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.28998	0.269
17DAP/reference	1.12518	0.171
27DAP/reference	1.00233	0.663
39DAP/reference	0.76315	0.045
41DAP/reference	0.81508	0.089
42DAP/reference	0.82693	0.073
43DAP/reference	0.98277	0.657
47DAP/reference	0.9098	0.055
52DAP/reference	0.87727	0.06
57DAP/reference	0.98579	0.68

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.00002	0.804
17DAP/reference	0.87751	0.234
27DAP/reference	0.83847	0.081
39DAP/reference	0.89616	0.063
41DAP/reference	0.86141	0.167
42DAP/reference	0.79914	0.134
43DAP/reference	0.65971	0.026
47DAP/reference	0.75629	0.007
52DAP/reference	2.17479	0.534
57DAP/reference	0.80449	0.051

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.39838	0.85
26DAP/20DAP	1.01431	1
34DAP/26DAP	1.06086	1
51DAP/34DAP	1.10228	0.814
52DAP/51DAP	1.06444	0.704
53DAP/52DAP	1.18108	0.58
55DAP/53DAP	1.14055	0.261
57DAP/55DAP	1.11211	0.728
62DAP/57DAP	1.02103	1
68DAP/62DAP	0.9586	0.769
68DAP/14DAP	0.67515	0.375

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.90139	0.224

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	0.96341	0.692
Mature Green Tomato/Ripe Tomato	1.01298	0.835
Immature Eggplant/Mature Eggplant	1.64254	0.05
Ripe Pepper/Ripe Tomato	1.19441	0.258
Mature Eggplant/Ripe Tomato	1.33074	0.268

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.1774	N/A
1-1-2/M82	1.07125	1
12-2/M82	0.94558	N/A
12-4/M82	0.79377	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	1.35505	N/A
4-3-2/M82	0.83599	N/A
4-3/M82	1.19574	0.268
5-3/M82	0.9224	1
6-2/M82	N/A	N/A
6-3/M82	1.03647	1
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	1.09104	0.493
IL2-6/WTpooled	N/A	N/A
IL7-5/WTpooled	0.33508	N/A
IL7-3/WTpooled	N/A	N/A
IL12-4/WTpooled	1.17263	0.839
IL1-4/WTpooled	0.98474	1
WT/WTpooled	1.12896	0.789

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	1.0578	1

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.00778	1
DC3000/delta hrp 6h	0.9737	0.95
DC3000/delta hrp 12h	1.14422	1
DC3000/delta hrp 24h	1.02403	0.797

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	0.80592	0.024
DC3000 delta B/DC3000 delta AB	0.94294	0.71

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	1.01432	1
Exp 36h	0.75376	0.406
Exp 60h	0.79759	0.522

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

hybridization	ratio	FDR (corrected p value)
self-self	1.05933	1
Var 0h	0.97277	1
Var 12h I row2-row1	1.07532	0.506
Var 12h NI row2-row1	1.0314	0.649
Var 36h I row2-row1	0.86522	0.805
Var 36h NI row2-row1	1.29348	0.482
Var 60h I row2-row1	0.95376	0.832
Var 60h NI row2-row1	1.10459	0.904
Time course 0hI-0hNI	1.03364	0.852
Time course 12hI-12hNI	1.00272	1
Time course 36hI-36hNI	0.95776	0.295
Time course 60hI-60hNI	0.83333	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)	1.05132	0.612
transgenic ySAMdc/azygous control (breaker)	0.99428	1
transgenic ySAMdc/azygous control (red)	1.01118	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.81279	0.078

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.94986	0.227

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.99082	1
Manapal/WT (break)	1.10081	0.381
Manapal/WT (red)	1.0421	1