Tomato Functional Genomics Database (TFGD)

Expression of 1-1-4.1.3.8

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.02447	0.927
27DAP/17DAP	1.15697	0.841
39DAP/27DAP	0.81927	0.449
41DAP/39DAP	1.27876	0.545
42DAP/41DAP	1.15154	0.933
43DAP/42DAP	0.90021	0.806
47DAP/43DAP	0.92241	0.716
52DAP/47DAP	1.17237	0.715
57DAP/52DAP	0.89217	0.839

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.09516	0.814
17DAP/reference	1.01781	0.843
27DAP/reference	1.06592	1
39DAP/reference	1.37223	0.047
41DAP/reference	1.02319	0.451
42DAP/reference	1.12608	0.504
43DAP/reference	0.76966	0.013
47DAP/reference	0.94773	0.445
52DAP/reference	1.34939	0.256
57DAP/reference	N/A	N/A

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.81262	0.311
27DAP/17DAP	1.63919	0.573
39DAP/27DAP	1.00034	0.881
41DAP/39DAP	0.91784	0.781
42DAP/41DAP	0.79355	0.143
43DAP/42DAP	1.1666	0.83
47DAP/43DAP	1.05178	0.93
52DAP/47DAP	1.0425	0.986
57DAP/52DAP	0.97487	0.745
57DAP/7DAP	1.12293	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.82152	0.06
17DAP/reference	0.8814	0.031
27DAP/reference	0.91723	0.024
39DAP/reference	0.87331	0.043
41DAP/reference	0.8372	0.021
42DAP/reference	0.81065	0.01
43DAP/reference	0.74731	0.012
47DAP/reference	0.86116	0.293
52DAP/reference	0.71852	0.012
57DAP/reference	0.81897	0.011

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.02053	0.97
17DAP/reference	1.06285	0.543
27DAP/reference	1.12849	0.352
39DAP/reference	1.22979	0.087
41DAP/reference	1.30877	0.031
42DAP/reference	1.22666	0.136
43DAP/reference	1.28269	0.15
47DAP/reference	1.01971	0.943
52DAP/reference	1.09026	0.702
57DAP/reference	1.22572	0.085

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.99418	0.699
17DAP/reference	1.08731	0.641
27DAP/reference	0.93242	0.319
39DAP/reference	0.83057	0.035
41DAP/reference	0.9062	0.132
42DAP/reference	1.00241	0.671
43DAP/reference	0.93689	0.137
47DAP/reference	1.15233	0.057
52DAP/reference	0.8302	0.268
57DAP/reference	1.22149	0.428

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.71847	0.26
26DAP/20DAP	0.96245
34DAP/26DAP	0.43531
51DAP/34DAP	0.67461	0.08
52DAP/51DAP	1.59822	0.225
53DAP/52DAP	1.01172	1
55DAP/53DAP	0.79455	0.325
57DAP/55DAP	0.87945	0.698
62DAP/57DAP	0.84774	0.994
68DAP/62DAP	1.42306	0.066
68DAP/14DAP	1.33006

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.05907	0.821

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	N/A	N/A
Mature Green Tomato/Ripe Tomato	N/A	N/A
Immature Eggplant/Mature Eggplant	N/A	N/A
Ripe Pepper/Ripe Tomato	0.65038
Mature Eggplant/Ripe Tomato	N/A	N/A

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.09851	1
1-1-2/M82	N/A	N/A
12-2/M82	N/A	N/A
12-4/M82	0.59997
1-3/M82	0.67914	0.378
2-1-1/M82	N/A	N/A
2-1/M82	N/A	N/A
2-6/M82	0.90677	1
3-2/M82	0.71496
4-1-1/M82	0.56284
4-1/M82	0.76506
4-3-2/M82	1.76672
4-3/M82	N/A	N/A
5-3/M82	0.92097	0.49
6-2/M82	N/A	N/A
6-3/M82	1.35343
7-1/M82	0.56018
7-2/M82	N/A	N/A
9-3-2/M82	N/A	N/A

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	1.13277	0.277
IL2-6/WTpooled	1.51016
IL7-5/WTpooled	1.06363	1
IL7-3/WTpooled	N/A	N/A
IL12-4/WTpooled	0.76533
IL1-4/WTpooled	0.99698	1
WT/WTpooled	0.78764	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	0.65736	0.497

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.05568	0.914
DC3000/delta hrp 6h	N/A	N/A
DC3000/delta hrp 12h	1.07451	1
DC3000/delta hrp 24h	0.97737	0.818

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	N/A	N/A
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	0.99531	1
Var 0h	1.1139	0.311
Var 12h I row2-row1	1.07028	0.379
Var 12h NI row2-row1	0.80659	0.384
Var 36h I row2-row1	0.89061	0.575
Var 36h NI row2-row1	1.08727
Var 60h I row2-row1	1.12202	0.543
Var 60h NI row2-row1	1.24044	0.904
Time course 0hI-0hNI	0.79998	0.265
Time course 12hI-12hNI	0.93614	0.592
Time course 36hI-36hNI	0.773	0.023
Time course 60hI-60hNI	0.45971	0.006

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)	1.01086	0.921
transgenic ySAMdc/azygous control (breaker)	0.74857	0.15
transgenic ySAMdc/azygous control (red)	0.92346	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.95864	0.242

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.82792	0.255

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.87668	0.172
Manapal/WT (break)	0.95095	1
Manapal/WT (red)	0.935	0.728