Tomato Functional Genomics Database (TFGD)

Expression of 1-1-4.4.19.16

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.03912	0.932
27DAP/17DAP	1.07255	0.873
39DAP/27DAP	0.91708	0.608
41DAP/39DAP	1.51878	0.22
42DAP/41DAP	1.18565	0.752
43DAP/42DAP	1.00684	0.937
47DAP/43DAP	1.32293	0.213
52DAP/47DAP	0.96801	0.865
57DAP/52DAP	1.09504	0.95

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.97807	0.412
17DAP/reference	0.99854	1
27DAP/reference	0.99261	0.725
39DAP/reference	0.99998	1
41DAP/reference	1.01065	0.91
42DAP/reference	0.96981	0.091
43DAP/reference	0.93832	0.191
47DAP/reference	0.9818	0.418
52DAP/reference	0.94966	0.258
57DAP/reference	0.94189	0.165

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.91734	0.35
27DAP/17DAP	0.98358	0.943
39DAP/27DAP	1.11934	0.394
41DAP/39DAP	1.00128	1
42DAP/41DAP	1.04035	0.886
43DAP/42DAP	1.07223	0.446
47DAP/43DAP	0.99606	0.99
52DAP/47DAP	0.98826	0.935
57DAP/52DAP	0.95005	0.551
57DAP/7DAP	0.9612	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.86235	0.078
17DAP/reference	0.91783	0.012
27DAP/reference	0.8914	0.01
39DAP/reference	0.93942	0.039
41DAP/reference	0.89486	0.015
42DAP/reference	0.93928	0.06
43DAP/reference	0.92852	0.047
47DAP/reference	0.97798	0.504
52DAP/reference	0.87551	0.066
57DAP/reference	0.89983	0.038

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.99426	0.884
17DAP/reference	0.95128	0.176
27DAP/reference	0.93649	0.173
39DAP/reference	0.97103	0.442
41DAP/reference	0.94632	0.152
42DAP/reference	0.91361	0.042
43DAP/reference	1.0246	0.785
47DAP/reference	0.97208	0.379
52DAP/reference	1.00624	1
57DAP/reference	0.98646	0.549

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.97157	0.268
17DAP/reference	1.02728	0.563
27DAP/reference	0.97757	0.357
39DAP/reference	1.05895	0.235
41DAP/reference	0.96114	0.331
42DAP/reference	0.91045	0.032
43DAP/reference	0.91339	0.079
47DAP/reference	0.97896	0.525
52DAP/reference	0.9574	0.529
57DAP/reference	0.80906	0.019

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.05706	0.85
26DAP/20DAP	0.86393	0.512
34DAP/26DAP	1.05271	1
51DAP/34DAP	0.99505	0.937
52DAP/51DAP	0.99634	1
53DAP/52DAP	1.09419	0.58
55DAP/53DAP	1.07422	0.719
57DAP/55DAP	1.00273	0.953
62DAP/57DAP	1.03258	0.902
68DAP/62DAP	1.01373	0.914
68DAP/14DAP	1.0009	1

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.89075	0.102

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	1.03317	1
Mature Green Tomato/Ripe Tomato	0.63186	0.036
Immature Eggplant/Mature Eggplant	1.22291	0.067
Ripe Pepper/Ripe Tomato	2.00715	0.258
Mature Eggplant/Ripe Tomato	2.70625	0.373

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.02434	1
1-1-2/M82	1.01445	1
12-2/M82	1.017	1
12-4/M82	1.02545	1
1-3/M82	0.87877	0.378
2-1-1/M82	1.15808	0.764
2-1/M82	1.44714
2-6/M82	0.99159	1
3-2/M82	1.0545	0.84
4-1-1/M82	0.91456
4-1/M82	1.13033	0.853
4-3-2/M82	1.11547	1
4-3/M82	0.99347	1
5-3/M82	1.01902	1
6-2/M82	0.96979	0.497
6-3/M82	0.99476
7-1/M82	1.16092	0.598
7-2/M82	1.10025	0.291
9-3-2/M82	0.95068	1

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	1.27122	0.277
IL2-6/WTpooled	6.55486
IL7-5/WTpooled	14.0919	0.792
IL7-3/WTpooled	0.35921
IL12-4/WTpooled	1.80494	0.695
IL1-4/WTpooled	0.78135	0.699
WT/WTpooled	1.02997	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	1.09642	0.853

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.94633	0.941
DC3000/delta hrp 6h	0.96755	0.95
DC3000/delta hrp 12h	1.00806	1
DC3000/delta hrp 24h	1.03736	0.69

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	0.87326	0.03
DC3000 delta B/DC3000 delta AB	0.94195	0.393

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	0.97826	1
Exp 36h	1.36856	1
Exp 60h	1.2114	1

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

hybridization	ratio	FDR (corrected p value)
self-self	0.98798	1
Var 0h	5.35297	0.936
Var 12h I row2-row1	1.00046	1
Var 12h NI row2-row1	0.95087	0.82
Var 36h I row2-row1	0.97186	1
Var 36h NI row2-row1	0.99284	1
Var 60h I row2-row1	1.32294	0.562
Var 60h NI row2-row1	1.13813	0.904
Time course 0hI-0hNI	1.01912	0.852
Time course 12hI-12hNI	0.99858	1
Time course 36hI-36hNI	0.93278	0.187
Time course 60hI-60hNI	0.87141	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)	1.10807	0.268
transgenic ySAMdc/azygous control (breaker)	0.89023	0.251
transgenic ySAMdc/azygous control (red)	0.92417	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.99217	0.757

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.07256	1

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.82748	0.172
Manapal/WT (break)	0.82135	1
Manapal/WT (red)	0.87371	0.315