Tomato Functional Genomics Database (TFGD)

Expression of 1-1-5.3.7.10

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.98708	0.847
27DAP/17DAP	0.87767	0.766
39DAP/27DAP	1.41058	0.59
41DAP/39DAP	1.13454	0.535
42DAP/41DAP	1.02081	1
43DAP/42DAP	0.90724	0.801
47DAP/43DAP	0.96118	0.828
52DAP/47DAP	1.34512	0.474
57DAP/52DAP	1.04792	1

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.94984	0.217
17DAP/reference	0.96863	0.368
27DAP/reference	0.99434	0.797
39DAP/reference	0.98607	0.704
41DAP/reference	0.95573	0.267
42DAP/reference	0.9298	0.023
43DAP/reference	0.95092	0.346
47DAP/reference	0.91298	0.019
52DAP/reference	0.83282	0.029
57DAP/reference	0.91842	0.147

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.93567	0.311
27DAP/17DAP	0.93076	0.537
39DAP/27DAP	1.00509	0.874
41DAP/39DAP	1.06587	0.705
42DAP/41DAP	0.96665	0.734
43DAP/42DAP	0.89143	0.082
47DAP/43DAP	1.04007	0.765
52DAP/47DAP	0.99191	0.947
57DAP/52DAP	0.97996	0.773
57DAP/7DAP	1.0279	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.01124
17DAP/reference	1.06065	0.822
27DAP/reference	1.08911	0.049
39DAP/reference	0.99467	0.745
41DAP/reference	0.97743	0.146
42DAP/reference	1.02913	0.405
43DAP/reference	0.9528	0.151
47DAP/reference	0.93293	0.128
52DAP/reference	0.92189	0.077
57DAP/reference	1.00433	1

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.97601	0.669
17DAP/reference	0.90651	0.063
27DAP/reference	0.84666	0.119
39DAP/reference	0.91049	0.085
41DAP/reference	1.06353	1
42DAP/reference	0.92246	0.089
43DAP/reference	0.97425	0.569
47DAP/reference	0.93903	0.042
52DAP/reference	0.86375	0.004
57DAP/reference	0.93799	0.208

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.95586
17DAP/reference	0.98212	0.615
27DAP/reference	1.07138	0.156
39DAP/reference	1.08353	0.043
41DAP/reference	0.94445	0.077
42DAP/reference	0.93584	0.445
43DAP/reference	0.87005	0.039
47DAP/reference	0.8894	0.036
52DAP/reference	1.0681	0.749
57DAP/reference	0.78599	0.02

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.96745	1
26DAP/20DAP	0.95568	1
34DAP/26DAP	1.05599	1
51DAP/34DAP	1.0067	0.988
52DAP/51DAP	1.12205	0.51
53DAP/52DAP	0.90282	0.621
55DAP/53DAP	0.97391	0.807
57DAP/55DAP	0.9172	0.694
62DAP/57DAP	1.11446	0.723
68DAP/62DAP	1.01748	0.971
68DAP/14DAP	0.98253	1

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.11564	0.285

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	0.79141	0.249
Mature Green Tomato/Ripe Tomato	1.29995	0.267
Immature Eggplant/Mature Eggplant	2.49581	0.05
Ripe Pepper/Ripe Tomato	0.96883	1
Mature Eggplant/Ripe Tomato	3.86321	0.26

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.11086	1
1-1-2/M82	N/A	N/A
12-2/M82	1.07423
12-4/M82	1.16637	0.694
1-3/M82	1.05435	1
2-1-1/M82	N/A	N/A
2-1/M82	N/A	N/A
2-6/M82	0.95797	0.501
3-2/M82	N/A	N/A
4-1-1/M82	0.69016	0.962
4-1/M82	N/A	N/A
4-3-2/M82	N/A	N/A
4-3/M82	0.99343	1
5-3/M82	1.0445
6-2/M82	0.93182	1
6-3/M82	1.07654	1
7-1/M82	N/A	N/A
7-2/M82	0.92711
9-3-2/M82	1.09335	1

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	N/A	N/A
IL2-6/WTpooled	0.87273
IL7-5/WTpooled	N/A	N/A
IL7-3/WTpooled	0.61172	0.31
IL12-4/WTpooled	1.05352	0.785
IL1-4/WTpooled	0.97127	1
WT/WTpooled	0.94275	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	1.22912	0.479

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.03023	0.921
DC3000/delta hrp 6h	1.00973	1
DC3000/delta hrp 12h	0.97553	1
DC3000/delta hrp 24h	1.71054	0.048

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.60424	0.042
DC3000 delta B/DC3000 delta AB	1.1927	0.217

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	1.0148	1
Exp 36h	1.37285	0.489
Exp 60h	1.10842	0.563

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

hybridization	ratio	FDR (corrected p value)
self-self	0.97789	1
Var 0h	0.4396	0.457
Var 12h I row2-row1	0.78162	0.514
Var 12h NI row2-row1	1.50516	0.34
Var 36h I row2-row1	1.21059	1
Var 36h NI row2-row1	0.52227	0.478
Var 60h I row2-row1	0.88211	0.582
Var 60h NI row2-row1	0.82777	0.38
Time course 0hI-0hNI	1.11775	0.799
Time course 12hI-12hNI	1.17287	0.512
Time course 36hI-36hNI	3.32177	0.004
Time course 60hI-60hNI	15.4518	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)	0.89463	0.314
transgenic ySAMdc/azygous control (breaker)	0.94695	0.251
transgenic ySAMdc/azygous control (red)	1.05306	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.9823	0.214

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.72791	0.238

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.21898	0.105
Manapal/WT (break)	0.82205	0.333
Manapal/WT (red)	1.32944	0.413