Tomato Functional Genomics Database (TFGD)

Expression of 1-1-7.1.18.12

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.15712	0.485
27DAP/17DAP	1.33057	0.841
39DAP/27DAP	1.24265	0.873
41DAP/39DAP	1.16062	0.691
42DAP/41DAP	1.05111	0.978
43DAP/42DAP	0.80956	0.741
47DAP/43DAP	1.34854	0.42
52DAP/47DAP	1.01246	0.967
57DAP/52DAP	1.02202	0.94

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.1387	0.188
17DAP/reference	0.99994	1
27DAP/reference	0.95935	0.457
39DAP/reference	0.79259	0.342
41DAP/reference	0.94851	0.267
42DAP/reference	1.05887	0.098
43DAP/reference	1.00004	1
47DAP/reference	1.03064	0.575
52DAP/reference	1.06673	0.73
57DAP/reference	1.04399	0.478

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.00317	1
27DAP/17DAP	0.97163	0.312
39DAP/27DAP	1.00003	1
41DAP/39DAP	1.03258	0.79
42DAP/41DAP	1.00135	1
43DAP/42DAP	1.00666	0.746
47DAP/43DAP	1.01626	0.889
52DAP/47DAP	1.0068	0.986
57DAP/52DAP	0.99994	0.929
57DAP/7DAP	1.01006	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.99558	0.758
17DAP/reference	1.138	0.399
27DAP/reference	0.92195	0.303
39DAP/reference	1.19141	0.166
41DAP/reference	0.92115	0.098
42DAP/reference	1.22208	0.405
43DAP/reference	1.0854	0.83
47DAP/reference	1.00317	1
52DAP/reference	1.3368	0.052
57DAP/reference	1.05375	0.468

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.03436	0.559
17DAP/reference	1.10891	0.25
27DAP/reference	1.07184	0.437
39DAP/reference	1.07806	0.355
41DAP/reference	0.97529	0.441
42DAP/reference	1.02759	0.915
43DAP/reference	0.95319	0.468
47DAP/reference	1.00198	0.77
52DAP/reference	1.02504	0.789
57DAP/reference	1.11971	0.155

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.90248	0.335
17DAP/reference	0.89806	0.292
27DAP/reference	1.0708	0.467
39DAP/reference	0.9832	0.643
41DAP/reference	1.09869	0.796
42DAP/reference	1.03707	1
43DAP/reference	1.18767	0.154
47DAP/reference	1.02602	0.73
52DAP/reference	1.12411	0.534
57DAP/reference	1.09573	0.706

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.01133	0.966
26DAP/20DAP	1.00379	1
34DAP/26DAP	0.99059	1
51DAP/34DAP	1.04172	0.55
52DAP/51DAP	1.05233	0.596
53DAP/52DAP	1.04525	0.819
55DAP/53DAP	0.98814	0.864
57DAP/55DAP	1.00402	1
62DAP/57DAP	0.90086	0.466
68DAP/62DAP	0.99743	0.914
68DAP/14DAP	1.0942	0.453

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.99676	0.814

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	0.97639	0.745
Mature Green Tomato/Ripe Tomato	1.32575	0.437
Immature Eggplant/Mature Eggplant	1.26722	0.101
Ripe Pepper/Ripe Tomato	1.10922	1
Mature Eggplant/Ripe Tomato	1.12599	1

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	0.95532	0.944
1-1-2/M82	0.85296	1
12-2/M82	0.97823	0.955
12-4/M82	0.97354	1
1-3/M82	0.97867	1
2-1-1/M82	0.96681	1
2-1/M82	1.25821	1
2-6/M82	0.95096	1
3-2/M82	1.071
4-1-1/M82	1.05354	1
4-1/M82	0.99054
4-3-2/M82	0.90991	1
4-3/M82	0.91111	0.72
5-3/M82	0.98152	1
6-2/M82	0.94956	1
6-3/M82	1.03389	1
7-1/M82	0.88464	0.803
7-2/M82	0.97688	0.881
9-3-2/M82	1.11074	1

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	1.0094	1
IL2-6/WTpooled	1.02053	0.788
IL7-5/WTpooled	1.26606	0.792
IL7-3/WTpooled	0.88762	0.418
IL12-4/WTpooled	0.97836	1
IL1-4/WTpooled	0.96712	0.834
WT/WTpooled	1.01897	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	0.98616	1

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.10194	0.758
DC3000/delta hrp 6h	1.08843	0.95
DC3000/delta hrp 12h	0.97393	1
DC3000/delta hrp 24h	1.01204	0.76

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	0.9677	0.882
DC3000 delta B/DC3000 delta AB	0.95332	0.288

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	1.01361	1
Var 0h	0.90609	0.933
Var 12h I row2-row1	1.25915	0.202
Var 12h NI row2-row1	1.04755	1
Var 36h I row2-row1	1.07206	1
Var 36h NI row2-row1	0.92185	0.478
Var 60h I row2-row1	1.03732	0.562
Var 60h NI row2-row1	1.02857	1
Time course 0hI-0hNI	1.0573	0.867
Time course 12hI-12hNI	1.05621	0.672
Time course 36hI-36hNI	0.99075	0.665
Time course 60hI-60hNI	1.16719	0.08

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)	0.89026	0.314
transgenic ySAMdc/azygous control (breaker)	1.12903	1
transgenic ySAMdc/azygous control (red)	1.14602	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.97934	0.383

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.9858	0.789

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.93833	1
Manapal/WT (break)	0.91929	1
Manapal/WT (red)	0.97962	0.863