Tomato Functional Genomics Database (TFGD)

Expression of 1-1-2.4.4.2

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.88717	0.436
27DAP/17DAP	1.71451	0.599
39DAP/27DAP	0.71336	0.265
41DAP/39DAP	1.57556	0.549
42DAP/41DAP	0.9457	1
43DAP/42DAP	1.23153	1
47DAP/43DAP	1.10978	0.756
52DAP/47DAP	0.97575	0.772
57DAP/52DAP	1.08704	0.983

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.84948	0.075
17DAP/reference	1.019	0.874
27DAP/reference	0.93878	0.327
39DAP/reference	1.02684	0.734
41DAP/reference	0.97	0.542
42DAP/reference	0.93795	0.091
43DAP/reference	1.00127	0.882
47DAP/reference	0.97185	0.345
52DAP/reference	0.85955	0.067
57DAP/reference	0.99096	0.671

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.01303	1
27DAP/17DAP	1.0657	0.923
39DAP/27DAP	1.11382	0.615
41DAP/39DAP	0.91819	0.729
42DAP/41DAP	0.93511	0.584
43DAP/42DAP	1.06736	0.664
47DAP/43DAP	0.89545	0.606
52DAP/47DAP	0.75775	0.575
57DAP/52DAP	0.94509	0.685
57DAP/7DAP	1.29638	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.84367	0.122
17DAP/reference	1.09905	0.525
27DAP/reference	1.14478	0.073
39DAP/reference	1.2325	0.086
41DAP/reference	1.16924	0.147
42DAP/reference	1.23575	0.059
43DAP/reference	1.10771	0.05
47DAP/reference	1.07319	0.549
52DAP/reference	1.12364	0.139
57DAP/reference	0.85416	0.054

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.00064	0.951
17DAP/reference	1.16382	0.176
27DAP/reference	0.88792	0.155
39DAP/reference	0.95046	0.37
41DAP/reference	0.88994	0.137
42DAP/reference	0.94512	0.261
43DAP/reference	1.3605	0.192
47DAP/reference	0.96571	0.446
52DAP/reference	1.0241	1
57DAP/reference	1.11431	0.04

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.93715	0.249
17DAP/reference	1.04331	0.522
27DAP/reference	1.1699	0.032
39DAP/reference	0.94842	0.464
41DAP/reference	1.10357	0.343
42DAP/reference	0.90634	0.552
43DAP/reference	0.98081	0.545
47DAP/reference	1.1225	0.147
52DAP/reference	0.80615	0.144
57DAP/reference	0.9395	0.387

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.90537	1
26DAP/20DAP	1.04844	1
34DAP/26DAP	0.96707	0.97
51DAP/34DAP	1.29983	0.326
52DAP/51DAP	1.08036	0.873
53DAP/52DAP	1.04346	0.83
55DAP/53DAP	1.04169	0.981
57DAP/55DAP	1.1814	0.859
62DAP/57DAP	1.07017	1
68DAP/62DAP	1.2337	0.788
68DAP/14DAP	0.92827	1

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.31788	0.14

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	N/A	N/A
Mature Green Tomato/Ripe Tomato	0.85305	0.347
Immature Eggplant/Mature Eggplant	N/A	N/A
Ripe Pepper/Ripe Tomato	1.00057	1
Mature Eggplant/Ripe Tomato	2.01289	0.268

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.01963
1-1-2/M82	N/A	N/A
12-2/M82	N/A	N/A
12-4/M82	N/A	N/A
1-3/M82	0.42154
2-1-1/M82	N/A	N/A
2-1/M82	N/A	N/A
2-6/M82	N/A	N/A
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	N/A	N/A
4-3/M82	N/A	N/A
5-3/M82	0.93748	0.642
6-2/M82	N/A	N/A
6-3/M82	N/A	N/A
7-1/M82	N/A	N/A
7-2/M82	0.98291	1
9-3-2/M82	1.03371

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	N/A	N/A
IL2-6/WTpooled	1.06659	1
IL7-5/WTpooled	N/A	N/A
IL7-3/WTpooled	0.79508	1
IL12-4/WTpooled	0.90559	0.71
IL1-4/WTpooled	1.29601
WT/WTpooled	1.0778	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	0.79366	0.497

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.00701	1
DC3000/delta hrp 6h	1.05596	1
DC3000/delta hrp 12h	0.85617	1
DC3000/delta hrp 24h	1.07678	0.322

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	0.94168	1
Exp 36h	1.34623	1
Exp 60h	1.4318	1

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

hybridization	ratio	FDR (corrected p value)
self-self	N/A	N/A
Var 0h	1.10129	0.98
Var 12h I row2-row1	N/A	N/A
Var 12h NI row2-row1	N/A	N/A
Var 36h I row2-row1	N/A	N/A
Var 36h NI row2-row1	N/A	N/A
Var 60h I row2-row1	N/A	N/A
Var 60h NI row2-row1	N/A	N/A
Time course 0hI-0hNI	N/A	N/A
Time course 12hI-12hNI	N/A	N/A
Time course 36hI-36hNI	N/A	N/A
Time course 60hI-60hNI	N/A	N/A

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)	1.22044	0.261
transgenic ySAMdc/azygous control (breaker)	0.94952	0.49
transgenic ySAMdc/azygous control (red)	0.94069	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.97377	0.256

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.78807	0.238

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.01705	1
Manapal/WT (break)	1.59888	0.381
Manapal/WT (red)	1.20889	1