Tomato Functional Genomics Database (TFGD)

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Expression of 1-1-7.1.3.4

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.08935	0.893
27DAP/17DAP	1.0022	1
39DAP/27DAP	0.9315	0.663
41DAP/39DAP	1.28466	0.516
42DAP/41DAP	3.88485	0.016
43DAP/42DAP	2.98628	0.019
47DAP/43DAP	0.5288	0.052
52DAP/47DAP	1.68434	0.818
57DAP/52DAP	0.66959	0.784

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.7379	0.028
17DAP/reference	0.75654	0.041
27DAP/reference	1.07348	0.52
39DAP/reference	1.01546	0.92
41DAP/reference	0.76262	0.201
42DAP/reference	3.67173	0.001
43DAP/reference	4.05791	0.518
47DAP/reference	2.97207	0.11
52DAP/reference	1.38009	0.217
57DAP/reference	2.8181	N/A

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.16698	0.736
27DAP/17DAP	0.73325	0.134
39DAP/27DAP	2.02353	0.046
41DAP/39DAP	0.50799	0.013
42DAP/41DAP	2.31983	0.078
43DAP/42DAP	10.5297	0.013
47DAP/43DAP	0.68498	0.008
52DAP/47DAP	0.46126	0.041
57DAP/52DAP	0.75965	0.304
57DAP/7DAP	0.95119	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.08773	0.452
17DAP/reference	0.99831	0.599
27DAP/reference	1.1275	0.107
39DAP/reference	1.09436	0.267
41DAP/reference	1.01495	1
42DAP/reference	1.05416	1
43DAP/reference	1.11087	0.386
47DAP/reference	1.22597	0.145
52DAP/reference	0.78066	0.015
57DAP/reference	0.75094	0.016

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.88049	0.115
17DAP/reference	0.9817	0.642
27DAP/reference	0.92465	0.34
39DAP/reference	1.05937	1
41DAP/reference	1.03507	0.96
42DAP/reference	1.11939	0.099
43DAP/reference	0.96064	0.507
47DAP/reference	0.9163	0.178
52DAP/reference	1.01897	1
57DAP/reference	0.95655	0.488

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.00254	1
17DAP/reference	1.04273	0.944
27DAP/reference	1.15051	0.156
39DAP/reference	0.99467	0.755
41DAP/reference	0.95615	0.417
42DAP/reference	1.50328	0.082
43DAP/reference	2.07511	0.018
47DAP/reference	2.03176	0.025
52DAP/reference	1.37917	0.073
57DAP/reference	1.35344	0.04

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.19192	0.966
26DAP/20DAP	1.03289	1
34DAP/26DAP	0.79926	0.28
51DAP/34DAP	0.55499	0.076
52DAP/51DAP	1.01078	1
53DAP/52DAP	1.50296	0.413
55DAP/53DAP	1.0271	1
57DAP/55DAP	0.83625	0.521
62DAP/57DAP	0.68104	N/A
68DAP/62DAP	0.60492	N/A
68DAP/14DAP	1.56393	0.521

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	6.06166	0.014

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	N/A	N/A
Mature Green Tomato/Ripe Tomato	0.11045	0.017
Immature Eggplant/Mature Eggplant	N/A	N/A
Ripe Pepper/Ripe Tomato	0.0894	0.224
Mature Eggplant/Ripe Tomato	0.1016	0.234

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	5.60265	0.526
1-1-2/M82	2.26967	1
12-2/M82	1.14589	1
12-4/M82	2.62233	1
1-3/M82	1.41874	1
2-1-1/M82	1.3732	1
2-1/M82	0.74138	0.519
2-6/M82	4.52985	0.329
3-2/M82	0.11411	0.188
4-1-1/M82	2.55508	1
4-1/M82	2.42722	1
4-3-2/M82	1.83859	0.241
4-3/M82	2.54457	0.268
5-3/M82	0.63397	0.642
6-2/M82	0.79998	1
6-3/M82	1.25488	1
7-1/M82	0.63005	0.452
7-2/M82	2.19898	0.318
9-3-2/M82	1.89189	0.196

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	N/A	N/A
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	1.00931	1

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.04719	0.921
DC3000/delta hrp 6h	N/A	N/A
DC3000/delta hrp 12h	0.82059	1
DC3000/delta hrp 24h	1.31132	0.05

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	0.47972	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	0.96423	1
Var 0h	0.96108	1
Var 12h I row2-row1	1.03882	0.736
Var 12h NI row2-row1	1.05895	0.649
Var 36h I row2-row1	0.95669	0.805
Var 36h NI row2-row1	0.99368	0.852
Var 60h I row2-row1	0.93459	0.952
Var 60h NI row2-row1	1.19188	0.904
Time course 0hI-0hNI	0.85854	0.074
Time course 12hI-12hNI	1.07613	0.599
Time course 36hI-36hNI	0.94724	0.403
Time course 60hI-60hNI	0.66254	0.009

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)	1.0302	1
transgenic ySAMdc/azygous control (breaker)	9.33077	0.166
transgenic ySAMdc/azygous control (red)	1.4749	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.88398	0.05

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	N/A	N/A

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)	1.93682	1
Manapal/WT (red)	1.42193	0.413