Tomato Functional Genomics Database (TFGD)

Expression of 1-1-2.2.12.10

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.88563	0.496
27DAP/17DAP	1.0433	0.963
39DAP/27DAP	1.63007	0.17
41DAP/39DAP	0.93221	0.611
42DAP/41DAP	0.91691	1
43DAP/42DAP	0.99776	0.937
47DAP/43DAP	0.69725	0.185
52DAP/47DAP	1.48188	0.396
57DAP/52DAP	1.18033	0.912

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.32501	0.045
17DAP/reference	0.7668	0.041
27DAP/reference	1.09208	0.426
39DAP/reference	1.11183	0.474
41DAP/reference	1.03306	1
42DAP/reference	1.31113	0.002
43DAP/reference	1.02545	0.957
47DAP/reference	2.00201	0.001
52DAP/reference	2.37456	0.014
57DAP/reference	1.51276	0.016

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.36434	0.036
27DAP/17DAP	1.05238
39DAP/27DAP	0.96917	0.852
41DAP/39DAP	1.29145	1
42DAP/41DAP	1.00183	0.858
43DAP/42DAP	0.84591	0.538
47DAP/43DAP	1.11383	0.758
52DAP/47DAP	0.96202	0.902
57DAP/52DAP	1.18858	0.244
57DAP/7DAP	1.31626	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.56725	0.03
17DAP/reference	1.05413	0.328
27DAP/reference	1.31789	0.009
39DAP/reference	1.26915	0.008
41DAP/reference	1.26557	0.052
42DAP/reference	1.62189	0.024
43DAP/reference	1.48977	0.008
47DAP/reference	2.03355	0.014
52DAP/reference	1.7148	0.011
57DAP/reference	1.34812	0.015

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.08059	0.741
17DAP/reference	1.00505	0.642
27DAP/reference	2.00465	0.06
39DAP/reference	1.39179	0.281
41DAP/reference	1.16272	0.204
42DAP/reference	1.64545	0.009
43DAP/reference	1.09656	0.969
47DAP/reference	1.47321	0.036
52DAP/reference	0.65264	0.006
57DAP/reference	0.68795	0.035

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.29229	0.064
17DAP/reference	0.88069	0.243
27DAP/reference	1.10082	0.111
39DAP/reference	1.61037	0.009
41DAP/reference	1.14244	0.014
42DAP/reference	1.59632	0.022
43DAP/reference	1.46928	0.015
47DAP/reference	1.0553	1
52DAP/reference	1.58536	0.053
57DAP/reference	3.49749	0.006

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.02439	1
26DAP/20DAP	1.96624	0.102
34DAP/26DAP	0.89879	0.848
51DAP/34DAP	2.89885	0.03
52DAP/51DAP	0.82484	1
53DAP/52DAP	1.27733	0.149
55DAP/53DAP	0.77382	0.159
57DAP/55DAP	0.78997	0.171
62DAP/57DAP	0.62878	0.028
68DAP/62DAP	1.08334	0.939
68DAP/14DAP	2.9903	0.087

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.59011	0.049

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	0.75185	0.212
Mature Green Tomato/Ripe Tomato	1.65131	0.399
Immature Eggplant/Mature Eggplant	2.04694	0.05
Ripe Pepper/Ripe Tomato	0.975	1
Mature Eggplant/Ripe Tomato	0.64791	0.234

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.14417	0.526
1-1-2/M82	1.1162	1
12-2/M82	0.95834	0.955
12-4/M82	0.87384	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	0.84195
3-2/M82	N/A	N/A
4-1-1/M82	1.55991
4-1/M82	1.30637
4-3-2/M82	0.83028	0.487
4-3/M82	1.1399
5-3/M82	1.17259	0.572
6-2/M82	N/A	N/A
6-3/M82	0.79777
7-1/M82	0.54986
7-2/M82	1.15697	0.188
9-3-2/M82	1.11658	1

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	N/A	N/A
IL2-6/WTpooled	N/A	N/A
IL7-5/WTpooled	N/A	N/A
IL7-3/WTpooled	3.06152	1
IL12-4/WTpooled	0.90232	1
IL1-4/WTpooled	2.34886	1
WT/WTpooled	0.98881	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	1.02331	1

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.0367	0.921
DC3000/delta hrp 6h	0.87366	0.95
DC3000/delta hrp 12h	1.11414	1
DC3000/delta hrp 24h	0.8106	0.054

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.43462	0.042
DC3000 delta B/DC3000 delta AB	1.62072	0.081

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	1.14581	1
Exp 36h	1.17759	0.693
Exp 60h	1.25104	0.283

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

hybridization	ratio	FDR (corrected p value)
self-self	1.01089	1
Var 0h	1.01281	1
Var 12h I row2-row1	1.11212	0.654
Var 12h NI row2-row1	1.18093	0.34
Var 36h I row2-row1	1.11709	1
Var 36h NI row2-row1	1.04465	1
Var 60h I row2-row1	0.70062	0.287
Var 60h NI row2-row1	1.02343	1
Time course 0hI-0hNI	1.00525	1
Time course 12hI-12hNI	1.15166	0.186
Time course 36hI-36hNI	1.36668	0.021
Time course 60hI-60hNI	3.56077	0.008

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)	0.87013	0.391
transgenic ySAMdc/azygous control (breaker)	0.59346	0.173
transgenic ySAMdc/azygous control (red)	1.06334	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.18227	0.069

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.76079	0.238

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.04329	1
Manapal/WT (break)	1.59694	0.381
Manapal/WT (red)	1.05984	1