Tomato Functional Genomics Database (TFGD)

Expression of 1-1-3.2.18.8

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.06845	0.786
27DAP/17DAP	0.95534	0.947
39DAP/27DAP	0.87662	0.608
41DAP/39DAP	1.05876	1
42DAP/41DAP	1.31698	0.871
43DAP/42DAP	1.04107	1
47DAP/43DAP	1.08799	0.668
52DAP/47DAP	1.29954	0.444
57DAP/52DAP	0.95414	0.895

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.90164	0.054
17DAP/reference	1.0544	0.369
27DAP/reference	0.93978	0.314
39DAP/reference	0.96656	0.6
41DAP/reference	1.1173	0.171
42DAP/reference	0.86343	0.001
43DAP/reference	0.92584	0.118
47DAP/reference	0.94689	0.09
52DAP/reference	0.97619	0.461
57DAP/reference	0.92934	0.118

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.28508	0.414
27DAP/17DAP	1.08922	0.817
39DAP/27DAP	1.18697	0.158
41DAP/39DAP	1.16138	0.69
42DAP/41DAP	1.27645	0.308
43DAP/42DAP	1.00078	0.928
47DAP/43DAP	1.17919	0.396
52DAP/47DAP	1.02189	0.973
57DAP/52DAP	1.09766	0.877
57DAP/7DAP	0.95589	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.81709	0.129
17DAP/reference	1.10928	0.297
27DAP/reference	0.80487	0.248
39DAP/reference	0.88615	0.23
41DAP/reference	0.90647	0.146
42DAP/reference	1.01386	0.713
43DAP/reference	1.2981	0.167
47DAP/reference	0.92724	0.504
52DAP/reference	1.08585	0.886
57DAP/reference	1.12886	0.698

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.97265	0.669
17DAP/reference	0.92333	0.17
27DAP/reference	0.8125	0.058
39DAP/reference	0.82901	0.119
41DAP/reference	1.01925	0.557
42DAP/reference	0.76338	0.012
43DAP/reference	0.8958	0.166
47DAP/reference	0.80138	0.015
52DAP/reference	0.97742	0.5
57DAP/reference	1.10815	0.672

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.97834	0.526
17DAP/reference	0.93946	0.624
27DAP/reference	1.07744	0.721
39DAP/reference	1.11954	0.365
41DAP/reference	0.99843	0.754
42DAP/reference	0.78885	0.087
43DAP/reference	0.74553	0.084
47DAP/reference	0.89277	0.168
52DAP/reference	1.00181	0.781
57DAP/reference	0.73435	0.018

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.96259	1
26DAP/20DAP	0.91402	1
34DAP/26DAP	1.01436	1
51DAP/34DAP	1.00333	0.946
52DAP/51DAP	1.19426	0.413
53DAP/52DAP	0.96435	0.835
55DAP/53DAP	1.13968	0.136
57DAP/55DAP	1.12665	1
62DAP/57DAP	0.90809	0.871
68DAP/62DAP	1.01297	0.914
68DAP/14DAP	0.85315	0.375

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.78072	0.322

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	5.44207	0.058
Mature Green Tomato/Ripe Tomato	0.5796	0.021
Immature Eggplant/Mature Eggplant	1.00365	1
Ripe Pepper/Ripe Tomato	2.14649
Mature Eggplant/Ripe Tomato	1.30276	1

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	0.89093	0.934
1-1-2/M82	0.84609	0.804
12-2/M82	1.0972
12-4/M82	0.93906	1
1-3/M82	0.80836	0.501
2-1-1/M82	1.15642	1
2-1/M82	0.7324
2-6/M82	1.10891	0.594
3-2/M82	N/A	N/A
4-1-1/M82	1.18151	1
4-1/M82	0.92041	1
4-3-2/M82	0.8874	1
4-3/M82	0.92618
5-3/M82	0.99086	1
6-2/M82	N/A	N/A
6-3/M82	0.98162
7-1/M82	N/A	N/A
7-2/M82	1.10398	0.385
9-3-2/M82	0.68296	0.355

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	N/A	N/A
IL12-4/WTpooled	N/A	N/A
IL1-4/WTpooled	0.84989
WT/WTpooled	N/A	N/A

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	0.92558	1

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.0586	0.921
DC3000/delta hrp 6h	0.97755	0.95
DC3000/delta hrp 12h	1.07453	1
DC3000/delta hrp 24h	1.01329	1

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	N/A	N/A

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	N/A	N/A
Exp 36h	0.9689	0.943
Exp 60h	N/A	N/A

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

hybridization	ratio	FDR (corrected p value)
self-self	0.97208	1
Var 0h	0.93048	1
Var 12h I row2-row1	0.68854	0.544
Var 12h NI row2-row1	1.44778	1
Var 36h I row2-row1	0.95314	0.438
Var 36h NI row2-row1	0.71215	1
Var 60h I row2-row1	1.20696	0.483
Var 60h NI row2-row1	0.72876	0.701
Time course 0hI-0hNI	0.98351	0.958
Time course 12hI-12hNI	1.06346	0.603
Time course 36hI-36hNI	0.95491	0.366
Time course 60hI-60hNI	1.01699	1

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)	1.09626	0.261
transgenic ySAMdc/azygous control (breaker)	0.83562	0.15
transgenic ySAMdc/azygous control (red)	0.94697	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.03742	0.096

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.07057	0.277

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.87392	1
Manapal/WT (break)	0.93002	1
Manapal/WT (red)	1.16147	0.413