Tomato Functional Genomics Database (TFGD)

Expression of 1-1-7.1.9.20

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.81418	0.156
27DAP/17DAP	0.81153	0.49
39DAP/27DAP	1.34434	0.667
41DAP/39DAP	1.17503	0.326
42DAP/41DAP	1.21778	0.712
43DAP/42DAP	1.11668	0.954
47DAP/43DAP	0.88254	0.613
52DAP/47DAP	0.83712	0.646
57DAP/52DAP	0.83366	0.759

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.11177	0.384
17DAP/reference	0.9428	0.474
27DAP/reference	0.86272	0.124
39DAP/reference	0.92844	0.475
41DAP/reference	0.99347	0.814
42DAP/reference	0.9211	0.182
43DAP/reference	0.99572	0.882
47DAP/reference	1.01321	1
52DAP/reference	0.97514	0.489
57DAP/reference	1.03638	0.744

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.07653	0.749
27DAP/17DAP	0.88957	0.537
39DAP/27DAP	0.78601	0.065
41DAP/39DAP	0.92838	0.793
42DAP/41DAP	1.01693	0.864
43DAP/42DAP	0.93595	0.576
47DAP/43DAP	1.05968	0.857
52DAP/47DAP	0.96219	0.901
57DAP/52DAP	0.75084	0.237
57DAP/7DAP	0.91322	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.95706	0.445
17DAP/reference	1.02352	1
27DAP/reference	0.96049	0.325
39DAP/reference	1.04046	1
41DAP/reference	0.77712	0.076
42DAP/reference	0.92881	0.304
43DAP/reference	0.80609	0.079
47DAP/reference	0.87684	0.222
52DAP/reference	0.80218	0.043
57DAP/reference	0.90189	0.183

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.3245	0.078
17DAP/reference	1.04228	0.979
27DAP/reference	0.954	0.393
39DAP/reference	0.99594	0.682
41DAP/reference	0.92256	0.173
42DAP/reference	0.85334	0.098
43DAP/reference	1.12408	0.809
47DAP/reference	0.90495	0.026
52DAP/reference	0.91104	0.302
57DAP/reference	0.82709	0.02

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.11038	0.058
17DAP/reference	1.12957	0.117
27DAP/reference	1.01001	0.805
39DAP/reference	0.93463	0.328
41DAP/reference	1.05014	0.754
42DAP/reference	1.05204	0.716
43DAP/reference	1.06601	0.84
47DAP/reference	1.32065	0.11
52DAP/reference	0.98031	0.732
57DAP/reference	1.13071	0.196

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.11257	1
26DAP/20DAP	0.95218	1
34DAP/26DAP	0.89741	0.606
51DAP/34DAP	1.03805	0.946
52DAP/51DAP	0.93945	1
53DAP/52DAP	0.94569	0.712
55DAP/53DAP	0.80977	0.417
57DAP/55DAP	0.74488	0.37
62DAP/57DAP	0.90087	0.28
68DAP/62DAP	1.10979	0.858
68DAP/14DAP	1.08045	0.958

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.88357	0.108

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	0.57231	0.115
Mature Green Tomato/Ripe Tomato	1.7825	0.095
Immature Eggplant/Mature Eggplant	0.41417	0.04
Ripe Pepper/Ripe Tomato	8.80526	0.258
Mature Eggplant/Ripe Tomato	2.17204	0.373

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.20445	0.432
1-1-2/M82	1.14093	1
12-2/M82	1.41313
12-4/M82	0.76517	0.619
1-3/M82	0.88702	0.441
2-1-1/M82	1.24419
2-1/M82	0.60173	0.74
2-6/M82	1.17215
3-2/M82	1.11037
4-1-1/M82	0.78811	1
4-1/M82	0.97676
4-3-2/M82	N/A	N/A
4-3/M82	1.07312	1
5-3/M82	0.9128	0.344
6-2/M82	0.98323
6-3/M82	1.07551	1
7-1/M82	1.23632
7-2/M82	0.67496	0.578
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	0.82141	0.473
IL7-5/WTpooled	N/A	N/A
IL7-3/WTpooled	1.12878	1
IL12-4/WTpooled	1.07571	0.646
IL1-4/WTpooled	0.92043
WT/WTpooled	1.00468	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	0.71754	0.341

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.97584	1
DC3000/delta hrp 6h	0.97685	0.95
DC3000/delta hrp 12h	0.99717	1
DC3000/delta hrp 24h	0.76874	0.034

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	N/A	N/A
DC3000 delta B/DC3000 delta AB	0.46221	0.027

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	0.93699	1
Exp 36h	0.69342	0.456
Exp 60h	0.50855	0.386

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

hybridization	ratio	FDR (corrected p value)
self-self	0.99758	1
Var 0h	1.09322	0.98
Var 12h I row2-row1	0.74466	0.338
Var 12h NI row2-row1	0.92989	0.82
Var 36h I row2-row1	0.84861	0.805
Var 36h NI row2-row1	1.33917	1
Var 60h I row2-row1	1.3516	1
Var 60h NI row2-row1	0.97938	1
Time course 0hI-0hNI	0.9418	0.522
Time course 12hI-12hNI	1.00959	0.861
Time course 36hI-36hNI	0.89339	0.112
Time course 60hI-60hNI	0.12854	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)	1.34531	0.238
transgenic ySAMdc/azygous control (breaker)	1.51384	0.162
transgenic ySAMdc/azygous control (red)	1.1838	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.9579	0.186

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.50807	0.237

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	3.231	0.084
Manapal/WT (break)	2.21584	0.126
Manapal/WT (red)	1.63222	0.133