Tomato Functional Genomics Database (TFGD)

Expression of 1-1-6.4.14.10

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.78518	0.148
27DAP/17DAP	0.89873	0.766
39DAP/27DAP	0.72857	0.353
41DAP/39DAP	1.21506	0.483
42DAP/41DAP	1.07283	0.997
43DAP/42DAP	0.98983	0.934
47DAP/43DAP	0.99989	0.879
52DAP/47DAP	1.48877	0.418
57DAP/52DAP	0.87563	0.878

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.02166	0.9
17DAP/reference	0.93446	0.129
27DAP/reference	0.87734	0.085
39DAP/reference	0.97878	0.704
41DAP/reference	0.89968	0.154
42DAP/reference	1.08363	0.027
43DAP/reference	1.04022	0.403
47DAP/reference	0.96163	0.224
52DAP/reference	0.94715	0.341
57DAP/reference	0.92805	0.221

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.96356	0.663
27DAP/17DAP	0.9217	0.648
39DAP/27DAP	1.03121	0.77
41DAP/39DAP	1.04661	0.921
42DAP/41DAP	1.04196	0.935
43DAP/42DAP	1.06504	0.554
47DAP/43DAP	1.04666	0.88
52DAP/47DAP	1.00672	0.969
57DAP/52DAP	0.99888	0.897
57DAP/7DAP	0.97246	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.9698	0.613
17DAP/reference	0.9436	0.094
27DAP/reference	0.96388	0.146
39DAP/reference	0.88228	0.017
41DAP/reference	0.86961	0.025
42DAP/reference	0.84464	0.01
43DAP/reference	0.82377	0.034
47DAP/reference	0.85816	0.079
52DAP/reference	0.89842	0.057
57DAP/reference	0.8617	0.061

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.0883	0.246
17DAP/reference	0.99246	0.711
27DAP/reference	0.99834	0.711
39DAP/reference	1.05131	0.764
41DAP/reference	0.9287	0.237
42DAP/reference	0.91474	0.019
43DAP/reference	1.13878	0.128
47DAP/reference	1.01261	0.867
52DAP/reference	1.13812	0.013
57DAP/reference	1.17059	0.353

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.95974	0.098
17DAP/reference	1.02678	0.631
27DAP/reference	0.92094	0.147
39DAP/reference	0.95912	0.36
41DAP/reference	0.9615	0.064
42DAP/reference	1.04595	0.459
43DAP/reference	0.9112	0.294
47DAP/reference	0.9543	0.348
52DAP/reference	0.92367	0.277
57DAP/reference	0.75055	0.016

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.94354	1
26DAP/20DAP	1.07602	0.778
34DAP/26DAP	0.97872	0.98
51DAP/34DAP	1.04093	0.84
52DAP/51DAP	1.18428	0.106
53DAP/52DAP	1.08726	0.678
55DAP/53DAP	1.08691	0.634
57DAP/55DAP	0.88721	0.41
62DAP/57DAP	1.00234	1
68DAP/62DAP	1.01161	0.81
68DAP/14DAP	0.78919	0.375

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.84173	0.115

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	0.73472	0.276
Mature Green Tomato/Ripe Tomato	1.37126	0.523
Immature Eggplant/Mature Eggplant	0.63606	0.1
Ripe Pepper/Ripe Tomato	0.94364	1
Mature Eggplant/Ripe Tomato	1.24541	1

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.10058	1
1-1-2/M82	0.81224	0.804
12-2/M82	1.08319	1
12-4/M82	1.16384	1
1-3/M82	1.0527	1
2-1-1/M82	1.00199	1
2-1/M82	0.79699
2-6/M82	0.99009	1
3-2/M82	0.96222	1
4-1-1/M82	1.04554	1
4-1/M82	0.79926	0.737
4-3-2/M82	1.01022	1
4-3/M82	1.00635	1
5-3/M82	0.91747	1
6-2/M82	0.99145	1
6-3/M82	0.99131	1
7-1/M82	0.89399	0.509
7-2/M82	1.02537	1
9-3-2/M82	0.94957	1

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	2.26016
IL2-6/WTpooled	0.90383	0.383
IL7-5/WTpooled	1.22839	0.792
IL7-3/WTpooled	1.07058	1
IL12-4/WTpooled	1.05618	0.695
IL1-4/WTpooled	1.08559	1
WT/WTpooled	0.97674	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	0.95411	1

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.92643	1
DC3000/delta hrp 6h	1.00628	1
DC3000/delta hrp 12h	0.9903	1
DC3000/delta hrp 24h	0.86542	0.163

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	0.63451	0.032
DC3000 delta B/DC3000 delta AB	0.65237	0.02

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	0.87101	1
Exp 36h	0.62258	0.504
Exp 60h	0.66845	0.29

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

hybridization	ratio	FDR (corrected p value)
self-self	0.99423	1
Var 0h	0.99262	1
Var 12h I row2-row1	0.78591	0.338
Var 12h NI row2-row1	0.97265	0.82
Var 36h I row2-row1	1.05995	1
Var 36h NI row2-row1	1.47631	0.482
Var 60h I row2-row1	1.18329	0.562
Var 60h NI row2-row1	1.12806	0.904
Time course 0hI-0hNI	0.96701	0.817
Time course 12hI-12hNI	0.97554	0.782
Time course 36hI-36hNI	0.93905	0.194
Time course 60hI-60hNI	0.20185	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)	1.13656	0.286
transgenic ySAMdc/azygous control (breaker)	1.22215	0.248
transgenic ySAMdc/azygous control (red)	1.42514	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.98167	0.263

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.36289	0.237

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	2.32952	0.084
Manapal/WT (break)	1.65787	0.13
Manapal/WT (red)	1.40639	0.164