Tomato Functional Genomics Database (TFGD)

Expression of 1-1-1.4.12.11

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.04041	0.863
27DAP/17DAP	0.84933	0.539
39DAP/27DAP	1.10377	0.919
41DAP/39DAP	0.99686	0.954
42DAP/41DAP	0.98894	1
43DAP/42DAP	1.02816	1
47DAP/43DAP	1.06402	0.689
52DAP/47DAP	0.90133	0.682
57DAP/52DAP	1.01306	1

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.2724	0.218
17DAP/reference	0.93772	0.567
27DAP/reference	0.93724	0.642
39DAP/reference	0.99025	0.855
41DAP/reference	2.08384	0.012
42DAP/reference	1.09515	0.352
43DAP/reference	0.92793	0.519
47DAP/reference	1.12155	0.478
52DAP/reference	1.79095	0.096
57DAP/reference	0.96202	0.61

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.94194	0.613
27DAP/17DAP	1.01579	1
39DAP/27DAP	0.89285	0.239
41DAP/39DAP	1.03618	1
42DAP/41DAP	1.25769	0.46
43DAP/42DAP	0.8632	0.189
47DAP/43DAP	0.99713	0.989
52DAP/47DAP	1.1487	0.616
57DAP/52DAP	1.18568	0.657
57DAP/7DAP	0.90139	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.92343	0.445
17DAP/reference	0.57269	0.014
27DAP/reference	1.09708	0.571
39DAP/reference	0.78417	0.049
41DAP/reference	0.84388	0.107
42DAP/reference	1.00438	0.641
43DAP/reference	1.00664	0.637
47DAP/reference	0.77892	0.222
52DAP/reference	1.18597	0.149
57DAP/reference	1.0831	1

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.19901	0.589
17DAP/reference	0.97626	0.659
27DAP/reference	0.50601	0.292
39DAP/reference	1.06333	1
41DAP/reference	0.91725	0.137
42DAP/reference	0.90266	0.261
43DAP/reference	0.84347	0.314
47DAP/reference	0.64502	0.018
52DAP/reference	0.64368
57DAP/reference	1.00049	0.834

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.20774	0.804
17DAP/reference	1.25535	0.298
27DAP/reference	0.73677
39DAP/reference	0.91387	0.017
41DAP/reference	0.75904	0.293
42DAP/reference	0.96074	0.816
43DAP/reference	1.49459	1
47DAP/reference	0.91613	0.383
52DAP/reference	0.9556	0.675
57DAP/reference	0.89321	0.359

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.99503	1
26DAP/20DAP	0.90018	0.512
34DAP/26DAP	1.41872	0.819
51DAP/34DAP	0.90283	0.698
52DAP/51DAP	1.0509	0.836
53DAP/52DAP	0.69525	0.068
55DAP/53DAP	1.30019	0.252
57DAP/55DAP	0.99183	0.863
62DAP/57DAP	1.07395	1
68DAP/62DAP	0.25843
68DAP/14DAP	0.99285	1

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.95404	0.493

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	N/A	N/A
Mature Green Tomato/Ripe Tomato	2.36291	0.015
Immature Eggplant/Mature Eggplant	N/A	N/A
Ripe Pepper/Ripe Tomato	0.54144
Mature Eggplant/Ripe Tomato	0.28505	0.234

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	0.95196	0.944
1-1-2/M82	0.92564	1
12-2/M82	0.95168	0.955
12-4/M82	1.03822	1
1-3/M82	0.98147	1
2-1-1/M82	1.1568	1
2-1/M82	N/A	N/A
2-6/M82	0.93396	1
3-2/M82	1.00074	1
4-1-1/M82	0.9277	1
4-1/M82	0.88887	0.737
4-3-2/M82	0.9083	0.698
4-3/M82	0.86166	1
5-3/M82	0.95947	1
6-2/M82	1.03334	1
6-3/M82	1.01045	1
7-1/M82	1.04198
7-2/M82	0.92458	0.447
9-3-2/M82	0.81948	0.355

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	1.08807	1
IL2-6/WTpooled	1.31178	0.46
IL7-5/WTpooled	1.05814	1
IL7-3/WTpooled	0.81275	0.418
IL12-4/WTpooled	1.16015	0.839
IL1-4/WTpooled	1.09143	1
WT/WTpooled	1.02179	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	1.38291

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.02389	0.921
DC3000/delta hrp 6h	0.83841	0.95
DC3000/delta hrp 12h	1.04549	1
DC3000/delta hrp 24h	1.11319	0.336

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	0.41456
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	1.16277	1
Exp 36h	0.68221	0.623
Exp 60h	0.55113	0.257

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

hybridization	ratio	FDR (corrected p value)
self-self	1.06523	1
Var 0h	0.98821	1
Var 12h I row2-row1	0.84534	0.565
Var 12h NI row2-row1	0.8976	0.627
Var 36h I row2-row1	0.95446	1
Var 36h NI row2-row1	1.25201	0.482
Var 60h I row2-row1	9.13568	1
Var 60h NI row2-row1	1.18421	0.904
Time course 0hI-0hNI	1.00474	1
Time course 12hI-12hNI	0.93303	0.682
Time course 36hI-36hNI	0.77617	0.026
Time course 60hI-60hNI	0.25262	0.005

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)	1.63295	0.571
transgenic ySAMdc/azygous control (breaker)	N/A	N/A
transgenic ySAMdc/azygous control (red)	0.87313	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	N/A	N/A

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.79969	0.222

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	2.68106	0.307
Manapal/WT (break)	1.92961	0.123
Manapal/WT (red)	0.8486	0.424