Tomato Functional Genomics Database (TFGD)

Expression of 1-1-4.1.10.14

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.93292	0.503
27DAP/17DAP	0.82827	0.496
39DAP/27DAP	1.02572	1
41DAP/39DAP	0.97061	0.83
42DAP/41DAP	1.43481	0.066
43DAP/42DAP	1.16309	0.793
47DAP/43DAP	1.31214	0.502
52DAP/47DAP	1.17199	0.837
57DAP/52DAP	1.60722	0.55

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.90721	0.089
17DAP/reference	0.94007	0.24
27DAP/reference	1.15934	0.021
39DAP/reference	1.24065	0.06
41DAP/reference	1.10147	0.122
42DAP/reference	1.55038	0.002
43DAP/reference	1.40925	0.118
47DAP/reference	1.58668	0.007
52DAP/reference	1.10606	0.018
57DAP/reference	0.99517	0.701

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.97916	0.75
27DAP/17DAP	1.11836	0.653
39DAP/27DAP	0.76611	0.042
41DAP/39DAP	1.09437	0.612
42DAP/41DAP	0.99036	0.825
43DAP/42DAP	0.93281	0.466
47DAP/43DAP	0.99521	0.983
52DAP/47DAP	1.14269	0.527
57DAP/52DAP	1.17664	0.479
57DAP/7DAP	0.8621	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.93047	0.203
17DAP/reference	0.888	0.167
27DAP/reference	0.86049	0.017
39DAP/reference	0.80825	0.017
41DAP/reference	0.87117	0.133
42DAP/reference	0.86262	0.018
43DAP/reference	0.80245	0.027
47DAP/reference	0.88349	0.293
52DAP/reference	0.7185	0.013
57DAP/reference	0.68854	0.006

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.05674	0.289
17DAP/reference	0.93768	0.317
27DAP/reference	1.11009	0.367
39DAP/reference	0.95405	0.37
41DAP/reference	1.11916	0.459
42DAP/reference	1.02829	0.987
43DAP/reference	1.15471	0.485
47DAP/reference	1.2216	0.013
52DAP/reference	1.05389	0.444
57DAP/reference	1.18555	0.123

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.18242	0.196
17DAP/reference	1.16133	0.585
27DAP/reference	1.25928	0.023
39DAP/reference	1.04225	0.67
41DAP/reference	0.99515	0.754
42DAP/reference	1.58276	0.01
43DAP/reference	2.28663	0.015
47DAP/reference	2.38238	0.005
52DAP/reference	1.89291	0.059
57DAP/reference	1.88123	0.005

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.73592	0.733
26DAP/20DAP	0.83319	0.244
34DAP/26DAP	1.19553	1
51DAP/34DAP	0.67006	0.086
52DAP/51DAP	1.45753	0.035
53DAP/52DAP	0.83895	0.379
55DAP/53DAP	1.23814	0.072
57DAP/55DAP	0.88672	0.548
62DAP/57DAP	0.70796	0.28
68DAP/62DAP	1.03555	0.863
68DAP/14DAP	1.04917	1

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.98005	0.635

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	0.46878	0.094
Mature Green Tomato/Ripe Tomato	0.38643	0.02
Immature Eggplant/Mature Eggplant	2.51953	0.05
Ripe Pepper/Ripe Tomato	0.67495	0.293
Mature Eggplant/Ripe Tomato	0.6907	1

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.68094	0.526
1-1-2/M82	1.0646	1
12-2/M82	1.06231	1
12-4/M82	0.68411	0.33
1-3/M82	3.66161	0.277
2-1-1/M82	0.47442
2-1/M82	0.85879	0.519
2-6/M82	2.80657	0.395
3-2/M82	0.82131
4-1-1/M82	1.79098	1
4-1/M82	0.51425
4-3-2/M82	2.3246	0.262
4-3/M82	3.19983	1
5-3/M82	1.01066	1
6-2/M82	1.62101
6-3/M82	0.56567
7-1/M82	0.79077	1
7-2/M82	3.67914	0.291
9-3-2/M82	3.90366	0.196

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	0.92207
IL2-6/WTpooled	0.83936	0.383
IL7-5/WTpooled	N/A	N/A
IL7-3/WTpooled	1.10077	1
IL12-4/WTpooled	1.0662	1
IL1-4/WTpooled	1.00896	1
WT/WTpooled	0.9961	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	1.77759	0.222

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.93793	0.807
DC3000/delta hrp 6h	1.03443	1
DC3000/delta hrp 12h	1.35798	1
DC3000/delta hrp 24h	0.79367	0.111

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	0.97512	0.882
DC3000 delta B/DC3000 delta AB	1.20943	0.226

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	1.00367	1
Exp 36h	1.42281	0.693
Exp 60h	1.08566	1

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

hybridization	ratio	FDR (corrected p value)
self-self	1.00334	1
Var 0h	0.97371	0.936
Var 12h I row2-row1	0.85965	0.418
Var 12h NI row2-row1	1.45916	0.34
Var 36h I row2-row1	1.19919	1
Var 36h NI row2-row1	0.85014	0.61
Var 60h I row2-row1	0.76278	0.374
Var 60h NI row2-row1	0.8042	0.866
Time course 0hI-0hNI	1.00354	1
Time course 12hI-12hNI	1.14759	0.275
Time course 36hI-36hNI	2.89604	0.005
Time course 60hI-60hNI	6.33204	0.008

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)	1.38486	0.294
transgenic ySAMdc/azygous control (breaker)	1.05573	1
transgenic ySAMdc/azygous control (red)	1.50078	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.08407	0.471

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.80281	0.241

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	7.50935	0.083
Manapal/WT (break)	2.43762	0.14
Manapal/WT (red)	2.3323	0.142