Tomato Functional Genomics Database (TFGD)

Expression of 1-1-1.2.16.20

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.98004	0.77
27DAP/17DAP	0.95265	0.827
39DAP/27DAP	1.69795	0.073
41DAP/39DAP	0.6227	0.08
42DAP/41DAP	1.09035	1
43DAP/42DAP	1.20382	1
47DAP/43DAP	0.54802	0.068
52DAP/47DAP	1.29067	0.869
57DAP/52DAP	1.56287	0.849

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.94529	0.125
17DAP/reference	1.05698	0.071
27DAP/reference	1.02511	0.468
39DAP/reference	0.95082	0.611
41DAP/reference	1.07433	0.122
42DAP/reference	0.97007	0.157
43DAP/reference	1.00221	1
47DAP/reference	1.01188	0.963
52DAP/reference	1.01019	0.991
57DAP/reference	1.04291	0.249

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.90261	0.496
27DAP/17DAP	1.0659	0.988
39DAP/27DAP	1.01277	0.874
41DAP/39DAP	1.17385	0.868
42DAP/41DAP	0.87133	0.377
43DAP/42DAP	1.03267	1
47DAP/43DAP	1.00929	0.973
52DAP/47DAP	1.13261	0.676
57DAP/52DAP	0.8296	0.313
57DAP/7DAP	1.01986	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.85196	0.138
17DAP/reference	0.95691	0.389
27DAP/reference	0.76993	0.01
39DAP/reference	0.70702	0.025
41DAP/reference	0.77728	0.076
42DAP/reference	0.89015	0.144
43DAP/reference	0.76341	0.029
47DAP/reference	0.9149	0.222
52DAP/reference	0.75873	0.019
57DAP/reference	0.90981	0.144

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.98693	0.756
17DAP/reference	0.99788	0.83
27DAP/reference	0.96339	0.452
39DAP/reference	0.93569	0.274
41DAP/reference	1.20524	0.309
42DAP/reference	1.01547	0.879
43DAP/reference	1.22144	0.547
47DAP/reference	1.01722	0.712
52DAP/reference	0.98312	0.469
57DAP/reference	1.06771	0.269

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.91495	0.197
17DAP/reference	0.9009	0.313
27DAP/reference	0.85826	0.047
39DAP/reference	0.85464	0.163
41DAP/reference	0.95834	0.512
42DAP/reference	0.8492	0.087
43DAP/reference	0.88184	0.125
47DAP/reference	1.00133	1
52DAP/reference	1.16048	0.724
57DAP/reference	0.99977	0.801

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.97993	1
26DAP/20DAP	0.72026	0.512
34DAP/26DAP	0.85479
51DAP/34DAP	0.88491	0.217
52DAP/51DAP	1.01599	1
53DAP/52DAP	1.00527	1
55DAP/53DAP	1.10873	0.848
57DAP/55DAP	0.8978	0.596
62DAP/57DAP	0.91448	0.871
68DAP/62DAP	1.14922	0.939
68DAP/14DAP	1.25968	0.558

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.99582	0.737

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	N/A	N/A
Mature Green Tomato/Ripe Tomato	2.43812	0.015
Immature Eggplant/Mature Eggplant	N/A	N/A
Ripe Pepper/Ripe Tomato	0.98487	1
Mature Eggplant/Ripe Tomato	1.80961

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	0.83262	0.934
1-1-2/M82	N/A	N/A
12-2/M82	N/A	N/A
12-4/M82	1.54594
1-3/M82	N/A	N/A
2-1-1/M82	N/A	N/A
2-1/M82	N/A	N/A
2-6/M82	0.98512	1
3-2/M82	N/A	N/A
4-1-1/M82	N/A	N/A
4-1/M82	N/A	N/A
4-3-2/M82	2.06302
4-3/M82	N/A	N/A
5-3/M82	0.93837	1
6-2/M82	N/A	N/A
6-3/M82	N/A	N/A
7-1/M82	N/A	N/A
7-2/M82	0.85967
9-3-2/M82	N/A	N/A

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	0.86708
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	N/A	N/A

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.99647	1
DC3000/delta hrp 6h	1.32636	1
DC3000/delta hrp 12h	0.87684
DC3000/delta hrp 24h	1.03191	0.821

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	N/A	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	0.8307
Var 0h	0.89515	0.244
Var 12h I row2-row1	1.09225	0.324
Var 12h NI row2-row1	3.8489	1
Var 36h I row2-row1	0.97449	1
Var 36h NI row2-row1	0.93867	0.584
Var 60h I row2-row1	1.20163	1
Var 60h NI row2-row1	0.99717	1
Time course 0hI-0hNI	1.04874	0.852
Time course 12hI-12hNI	1.0151	0.892
Time course 36hI-36hNI	0.82646	0.041
Time course 60hI-60hNI	0.88456	0.081

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)	1.13151	0.571
transgenic ySAMdc/azygous control (breaker)	0.96489	1
transgenic ySAMdc/azygous control (red)	1.28141	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.9748	0.149

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.61411	0.238

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.99937	1
Manapal/WT (break)	0.90038	1
Manapal/WT (red)	0.83267	0.274