Tomato Functional Genomics Database (TFGD)

Expression of 1-1-3.1.4.19

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.70046	0.089
27DAP/17DAP	0.82425	0.523
39DAP/27DAP	0.68045	0.361
41DAP/39DAP	1.10681	0.649
42DAP/41DAP	0.96541	1
43DAP/42DAP	1.03052	0.937
47DAP/43DAP	0.89242	0.64
52DAP/47DAP	0.68075	0.172
57DAP/52DAP	0.88311	0.89

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.08605	0.218
17DAP/reference	1.03656	0.843
27DAP/reference	1.03041	0.735
39DAP/reference	1.10494	0.169
41DAP/reference	0.98492	0.814
42DAP/reference	0.98016	0.326
43DAP/reference	1.22757
47DAP/reference	0.91664	0.013
52DAP/reference	0.9321	0.31
57DAP/reference	N/A	N/A

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.09199	0.961
27DAP/17DAP	1.52049	0.061
39DAP/27DAP	1.33019	0.465
41DAP/39DAP	1.7857	0.304
42DAP/41DAP	0.88828	0.439
43DAP/42DAP	1.41318	0.094
47DAP/43DAP	1.0463	0.95
52DAP/47DAP	1.04774	0.919
57DAP/52DAP	1.32809	0.222
57DAP/7DAP	1.61422	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.15147	0.16
17DAP/reference	1.46576	0.009
27DAP/reference	1.44342	0.012
39DAP/reference	1.98498	0.006
41DAP/reference	1.88592	0.015
42DAP/reference	2.20071	0.006
43DAP/reference	2.18444	0.007
47DAP/reference	1.50138	0.191
52DAP/reference	1.75332	0.007
57DAP/reference	1.77658	0.004

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.08544	0.276
17DAP/reference	1.01001	1
27DAP/reference	1.01184	1
39DAP/reference	0.92274	0.144
41DAP/reference	1.02864	1
42DAP/reference	0.896	0.055
43DAP/reference	0.81991	0.125
47DAP/reference	0.91236	0.013
52DAP/reference	0.94394	0.187
57DAP/reference	0.97921	0.519

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.33363	0.033
17DAP/reference	1.18588	0.431
27DAP/reference	1.76184	0.016
39DAP/reference	1.54922	0.015
41DAP/reference	1.56668	0.015
42DAP/reference	1.34101	0.086
43DAP/reference	1.30837	0.25
47DAP/reference	0.92056	0.084
52DAP/reference	1.4967	0.161
57DAP/reference	1.02438	0.424

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.07219	0.85
26DAP/20DAP	1.06729	0.974
34DAP/26DAP	1.2357	1
51DAP/34DAP	1.2823	0.377
52DAP/51DAP	1.61034	0.606
53DAP/52DAP	1.64893	0.517
55DAP/53DAP	0.90682	0.632
57DAP/55DAP	1.3122	0.764
62DAP/57DAP	1.01267	0.935
68DAP/62DAP	0.96849	0.863
68DAP/14DAP	0.78157	0.375

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.92608	0.443

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	1.70818	0.058
Mature Green Tomato/Ripe Tomato	8.7985	0.015
Immature Eggplant/Mature Eggplant	0.31145	0.057
Ripe Pepper/Ripe Tomato	20.9383	1
Mature Eggplant/Ripe Tomato	9.74388	0.373

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	N/A	N/A
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	N/A	N/A
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	N/A	N/A
6-2/M82	N/A	N/A
6-3/M82	N/A	N/A
7-1/M82	N/A	N/A
7-2/M82	N/A	N/A
9-3-2/M82	N/A	N/A

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	0.90847	1
IL2-6/WTpooled	N/A	N/A
IL7-5/WTpooled	1.11657	1
IL7-3/WTpooled	N/A	N/A
IL12-4/WTpooled	N/A	N/A
IL1-4/WTpooled	1.08324	1
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	0.88515	0.975

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.97375	1
DC3000/delta hrp 6h	1.06699	1
DC3000/delta hrp 12h	1.09241	1
DC3000/delta hrp 24h	0.48064	0.034

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	1.05467

Experiment: Matt's wild cherry tomato vs. Phytophthora infestans

hybridization	ratio	FDR (corrected p value)
Exp 12h	0.90454	1
Exp 36h	0.73413	0.406
Exp 60h	0.52329	0.257

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

hybridization	ratio	FDR (corrected p value)
self-self	1.00716	1
Var 0h	1.31792	1
Var 12h I row2-row1	0.89209	0.77
Var 12h NI row2-row1	1.10474	1
Var 36h I row2-row1	1.02597	1
Var 36h NI row2-row1	1.1005	1
Var 60h I row2-row1	0.79743
Var 60h NI row2-row1	0.815	0.292
Time course 0hI-0hNI	0.90455	0.265
Time course 12hI-12hNI	0.97701	0.858
Time course 36hI-36hNI	1.07825	1
Time course 60hI-60hNI	0.90922	0.319

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)	0.81083	0.299
transgenic ySAMdc/azygous control (breaker)	3.16169	0.248
transgenic ySAMdc/azygous control (red)	1.02394	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.90076	0.044

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	3.28728	0.231

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	2.97569	0.083
Manapal/WT (break)	2.41666	0.123
Manapal/WT (red)	1.76649	1