Tomato Functional Genomics Database (TFGD)

Expression of 1-1-5.2.19.8

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.87247	0.445
27DAP/17DAP	1.31495	0.767
39DAP/27DAP	0.92414	0.631
41DAP/39DAP	1.0632	0.814
42DAP/41DAP	0.90973	1
43DAP/42DAP	1.00909	1
47DAP/43DAP	1.07138	0.842
52DAP/47DAP	1.29685	0.438
57DAP/52DAP	1.08661	0.977

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.22982	0.441
17DAP/reference	1.57307	0.01
27DAP/reference	1.33661	0.022
39DAP/reference	1.3466	0.015
41DAP/reference	1.74467	0.027
42DAP/reference	1.18637	0.812
43DAP/reference	2.11968	0.495
47DAP/reference	1.17567	0.264
52DAP/reference	1.4174	0.009
57DAP/reference	N/A	N/A

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.96433	0.509
27DAP/17DAP	0.98776	0.887
39DAP/27DAP	1.02601	0.691
41DAP/39DAP	0.98705	1
42DAP/41DAP	1.0248	0.947
43DAP/42DAP	1.0737	0.192
47DAP/43DAP	1.0526	0.865
52DAP/47DAP	1.03954	0.835
57DAP/52DAP	0.95969	0.507
57DAP/7DAP	0.95298	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.99067	0.682
17DAP/reference	0.91386	0.018
27DAP/reference	0.87952	0.01
39DAP/reference	0.93353	0.049
41DAP/reference	0.89004	0.082
42DAP/reference	0.89612	0.023
43DAP/reference	0.90348	0.027
47DAP/reference	0.96015	0.504
52DAP/reference	0.83891	0.024
57DAP/reference	0.82112	0.007

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.34025	0.058
17DAP/reference	1.67485	0.007
27DAP/reference	1.08846	0.875
39DAP/reference	1.37213	0.044
41DAP/reference	1.41725	0.012
42DAP/reference	1.27236	0.091
43DAP/reference	1.58168	0.023
47DAP/reference	1.22116	0.04
52DAP/reference	1.45801	0.017
57DAP/reference	2.05457	0.009

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.08607	0.366
17DAP/reference	1.13276	0.431
27DAP/reference	0.81826	0.024
39DAP/reference	0.91434	0.083
41DAP/reference	0.8802	0.032
42DAP/reference	1.08085	0.701
43DAP/reference	1.19934	0.459
47DAP/reference	1.35104	0.006
52DAP/reference	0.85682	0.2
57DAP/reference	0.90788	0.238

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.07865	0.966
26DAP/20DAP	1.00078	1
34DAP/26DAP	1.06495	0.819
51DAP/34DAP	0.94338	0.688
52DAP/51DAP	1.0048	0.954
53DAP/52DAP	1.09081	0.608
55DAP/53DAP	1.04068	0.737
57DAP/55DAP	1.02293	0.906
62DAP/57DAP	1.03874	1
68DAP/62DAP	1.14569	0.897
68DAP/14DAP	0.67414	0.121

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.8307	0.028

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	1.53792	0.058
Mature Green Tomato/Ripe Tomato	0.64111	0.045
Immature Eggplant/Mature Eggplant	1.43372	0.11
Ripe Pepper/Ripe Tomato	0.68622	0.293
Mature Eggplant/Ripe Tomato	0.42109	0.234

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.17743	0.877
1-1-2/M82	1.07508	1
12-2/M82	0.85235	0.678
12-4/M82	0.98703	1
1-3/M82	2.3504	0.479
2-1-1/M82	1.1096	0.689
2-1/M82	0.78006	0.322
2-6/M82	1.14315	0.695
3-2/M82	0.98935	1
4-1-1/M82	1.02496	1
4-1/M82	1.0392	1
4-3-2/M82	1.23085	1
4-3/M82	1.25167	1
5-3/M82	1.26217	0.572
6-2/M82	2.21581
6-3/M82	0.96947	1
7-1/M82	1.19879	0.992
7-2/M82	1.01052
9-3-2/M82	1.11488	1

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	1.17569	0.365
IL2-6/WTpooled	1.18829	0.427
IL7-5/WTpooled	0.9678
IL7-3/WTpooled	0.99119	1
IL12-4/WTpooled	1.09948	0.538
IL1-4/WTpooled	1.11839	1
WT/WTpooled	1.10644	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	0.9738	1

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.98197	1
DC3000/delta hrp 6h	0.97783	0.95
DC3000/delta hrp 12h	1.13717	1
DC3000/delta hrp 24h	2.67204	0.031

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	0.93891	0.629
DC3000 delta B/DC3000 delta AB	0.97657	0.849

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	1.09609	1
Exp 36h	0.79227	0.661
Exp 60h	1.23941	1

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

hybridization	ratio	FDR (corrected p value)
self-self	0.9856	1
Var 0h	1.0352	1
Var 12h I row2-row1	1.20571	0.187
Var 12h NI row2-row1	1.06274	1
Var 36h I row2-row1	0.81631	0.575
Var 36h NI row2-row1	1.04096	1
Var 60h I row2-row1	1.34513	1
Var 60h NI row2-row1	1.16912	0.904
Time course 0hI-0hNI	1.04482	0.852
Time course 12hI-12hNI	1.05458	0.693
Time course 36hI-36hNI	0.88723	0.058
Time course 60hI-60hNI	0.72717	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)	0.83807	0.391
transgenic ySAMdc/azygous control (breaker)	0.76706	0.251
transgenic ySAMdc/azygous control (red)	0.82618	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.90894	0.05

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.10325	1

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	N/A	N/A
Manapal/WT (break)	N/A	N/A
Manapal/WT (red)	0.87648	0.503