Tomato Functional Genomics Database (TFGD)

Expression of 1-1-4.1.18.15

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.06447	0.893
27DAP/17DAP	0.9069	0.791
39DAP/27DAP	0.86129	0.549
41DAP/39DAP	0.95749	0.841
42DAP/41DAP	0.94293	1
43DAP/42DAP	1.10012	1
47DAP/43DAP	1.29819	0.377
52DAP/47DAP	1.4165	0.474
57DAP/52DAP	1.28518	0.98

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.9706	0.422
17DAP/reference	0.98751	0.63
27DAP/reference	0.99395	0.797
39DAP/reference	0.94843	0.298
41DAP/reference	1.05429	0.287
42DAP/reference	1.02554	0.166
43DAP/reference	0.94145	0.107
47DAP/reference	0.99896	0.72
52DAP/reference	0.97039	0.416
57DAP/reference	1.02027	0.463

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.95817	0.716
27DAP/17DAP	1.02208	0.945
39DAP/27DAP	N/A	N/A
41DAP/39DAP	1.01043	0.914
42DAP/41DAP	0.98724	0.864
43DAP/42DAP	1.07995
47DAP/43DAP	0.95091	0.833
52DAP/47DAP	0.98936	0.935
57DAP/52DAP	0.91798	0.264
57DAP/7DAP	0.91069	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.9511	0.138
17DAP/reference	0.93701	0.019
27DAP/reference	0.87411	0.013
39DAP/reference	0.95009	0.049
41DAP/reference	1.0038	1
42DAP/reference	0.96723	0.289
43DAP/reference	1.03654	0.386
47DAP/reference	0.94696	0.168
52DAP/reference	1.02947	0.491
57DAP/reference	0.98507	0.53

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.96819	0.518
17DAP/reference	0.99378	0.747
27DAP/reference	0.99012	0.619
39DAP/reference	0.97551	0.25
41DAP/reference	0.93957	0.256
42DAP/reference	1.02233	1
43DAP/reference	0.99323	0.761
47DAP/reference	0.97226	0.27
52DAP/reference	0.9982	0.713
57DAP/reference	0.98798	0.649

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.91156	0.052
17DAP/reference	0.93175	0.186
27DAP/reference	1.04896	0.575
39DAP/reference	1.00509	0.962
41DAP/reference	0.96961	0.331
42DAP/reference	0.90495	0.023
43DAP/reference	0.96317	0.216
47DAP/reference	0.95029	0.174
52DAP/reference	0.93004	0.284
57DAP/reference	0.97618	0.491

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.006	1
26DAP/20DAP	1.00938	1
34DAP/26DAP	1.0247	1
51DAP/34DAP	1.03165	0.785
52DAP/51DAP	1.01462	0.836
53DAP/52DAP	1.06139	0.882
55DAP/53DAP	1.10064	0.806
57DAP/55DAP	1.23317	0.156
62DAP/57DAP	0.87838	0.28
68DAP/62DAP	0.93576	0.464
68DAP/14DAP	1.09445	0.419

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.97883	0.52

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	1.05555	0.176
Mature Green Tomato/Ripe Tomato	0.30672	0.031
Immature Eggplant/Mature Eggplant	0.93646	0.594
Ripe Pepper/Ripe Tomato	1.6276	1
Mature Eggplant/Ripe Tomato	0.56753	1

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.01401	1
1-1-2/M82	1.02303	1
12-2/M82	0.97613	0.955
12-4/M82	1.0261	0.694
1-3/M82	0.95231	1
2-1-1/M82	0.98452	0.92
2-1/M82	1.03276	1
2-6/M82	0.93214	1
3-2/M82	1.05171
4-1-1/M82	1.07734	1
4-1/M82	0.95396
4-3-2/M82	N/A	N/A
4-3/M82	0.95822	1
5-3/M82	0.92887	0.642
6-2/M82	0.97886	1
6-3/M82	1.01831	1
7-1/M82	0.97575	0.803
7-2/M82	0.99003	1
9-3-2/M82	0.85059

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	0.87279
IL2-6/WTpooled	N/A	N/A
IL7-5/WTpooled	N/A	N/A
IL7-3/WTpooled	N/A	N/A
IL12-4/WTpooled	N/A	N/A
IL1-4/WTpooled	N/A	N/A
WT/WTpooled	0.62475

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	1.17966	0.699

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.97905	1
DC3000/delta hrp 6h	0.97338	0.95
DC3000/delta hrp 12h	1.00319	1
DC3000/delta hrp 24h	0.98563	0.945

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	0.95573	0.513
DC3000 delta B/DC3000 delta AB	1.0724	0.398

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	1.23109	1
Exp 36h	1.30597	0.693
Exp 60h	1.30689	0.399

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

hybridization	ratio	FDR (corrected p value)
self-self	0.97913	1
Var 0h	1.60534	0.594
Var 12h I row2-row1	1.25479	0.235
Var 12h NI row2-row1	0.92805	0.627
Var 36h I row2-row1	1.11072	1
Var 36h NI row2-row1	0.97146	0.791
Var 60h I row2-row1	1.22991	0.562
Var 60h NI row2-row1	1.04029	1
Time course 0hI-0hNI	1.0494	0.852
Time course 12hI-12hNI	1.06994	0.621
Time course 36hI-36hNI	0.97298	0.549
Time course 60hI-60hNI	1.13876	0.053

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)	1.11812	0.347
transgenic ySAMdc/azygous control (breaker)	1.08859	1
transgenic ySAMdc/azygous control (red)	1.10372	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.00549	0.811

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.0217	0.277

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.10241	1
Manapal/WT (break)	0.99559	1
Manapal/WT (red)	0.79622	0.274