Tomato Functional Genomics Database (TFGD)

Expression of 1-1-5.1.15.5

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.78979	0.253
27DAP/17DAP	0.91165	0.804
39DAP/27DAP	3.77552	0.025
41DAP/39DAP	0.8537	0.455
42DAP/41DAP	0.78702	0.774
43DAP/42DAP	1.1027	0.937
47DAP/43DAP	0.28267	0.046
52DAP/47DAP	3.81028	0.039
57DAP/52DAP	0.89217	0.867

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.27221	0.207
17DAP/reference	0.77526	0.009
27DAP/reference	0.8632	0.201
39DAP/reference	0.79612	0.121
41DAP/reference	0.66955	0.008
42DAP/reference	1.48603	0.001
43DAP/reference	0.87038	0.129
47DAP/reference	0.95716	0.366
52DAP/reference	0.91022	0.237
57DAP/reference	1.11471	0.249

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.29386	0.027
27DAP/17DAP	1.88761	0.023
39DAP/27DAP	1.143	0.436
41DAP/39DAP	1.81058	0.719
42DAP/41DAP	0.95209	0.63
43DAP/42DAP	2.13293	0.013
47DAP/43DAP	1.11558	0.464
52DAP/47DAP	0.56922	0.093
57DAP/52DAP	1.39219	0.355
57DAP/7DAP	0.96478	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	2.08971	0.024
17DAP/reference	1.26038	0.02
27DAP/reference	1.65154	0.03
39DAP/reference	1.80788	0.005
41DAP/reference	2.03027	0.008
42DAP/reference	2.41483	0.008
43DAP/reference	3.75777	0.006
47DAP/reference	2.74076	0.014
52DAP/reference	3.21589	0.007
57DAP/reference	1.98934	0.004

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.08899	0.741
17DAP/reference	0.86642	0.129
27DAP/reference	1.53264	0.035
39DAP/reference	1.44529	0.03
41DAP/reference	1.38195	0.01
42DAP/reference	1.43738	0.059
43DAP/reference	0.66713	0.021
47DAP/reference	1.01369	1
52DAP/reference	0.78335	0.004
57DAP/reference	0.51928	0.003

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.55271	0.022
17DAP/reference	0.97327	0.56
27DAP/reference	1.59528	0.014
39DAP/reference	1.65258	0.008
41DAP/reference	1.36019	0.011
42DAP/reference	1.82199	0.007
43DAP/reference	1.72769	0.007
47DAP/reference	0.58448	0.006
52DAP/reference	1.14169	0.436
57DAP/reference	0.91378	0.217

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.24947	0.966
26DAP/20DAP	0.94614	1
34DAP/26DAP	0.76462	0.131
51DAP/34DAP	0.98526	0.863
52DAP/51DAP	0.77849	1
53DAP/52DAP	1.40259	0.077
55DAP/53DAP	0.94565	0.632
57DAP/55DAP	0.74422	0.049
62DAP/57DAP	1.02853	1
68DAP/62DAP	1.23914	0.323
68DAP/14DAP	1.37721	0.826

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	5.80389	0.014

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	1.15006	0.666
Mature Green Tomato/Ripe Tomato	0.35219	0.017
Immature Eggplant/Mature Eggplant	0.66569	0.064
Ripe Pepper/Ripe Tomato	0.22601	0.224
Mature Eggplant/Ripe Tomato	0.42581	0.234

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	0.88922	0.944
1-1-2/M82	1.14693	1
12-2/M82	0.91996
12-4/M82	1.17405	1
1-3/M82	3.77	0.479
2-1-1/M82	1.10645	0.764
2-1/M82	0.88901	0.74
2-6/M82	1.12396	0.395
3-2/M82	1.89009
4-1-1/M82	1.15661	0.998
4-1/M82	1.76201	1
4-3-2/M82	1.4018	0.246
4-3/M82	1.3796	1
5-3/M82	1.04738	1
6-2/M82	3.83689	0.253
6-3/M82	1.1548	1
7-1/M82	2.18604	0.598
7-2/M82	2.75189	0.385
9-3-2/M82	1.03554	1

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	0.86524	0.247
IL2-6/WTpooled	1.2052	0.419
IL7-5/WTpooled	1.35783	0.792
IL7-3/WTpooled	0.81234	0.418
IL12-4/WTpooled	0.99697	1
IL1-4/WTpooled	1.01969	1
WT/WTpooled	0.99495	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	1.12334	1

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.13448	0.846
DC3000/delta hrp 6h	0.96812	0.95
DC3000/delta hrp 12h	1.15784	1
DC3000/delta hrp 24h	0.97595	0.861

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.58604
DC3000 delta B/DC3000 delta AB	0.92786	0.558

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	1.18558	1
Exp 36h	0.88001	0.82
Exp 60h	1.09087	0.563

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

hybridization	ratio	FDR (corrected p value)
self-self	0.99848	1
Var 0h	0.86609	0.933
Var 12h I row2-row1	0.97729	0.856
Var 12h NI row2-row1	1.13869	1
Var 36h I row2-row1	1.0637	0.601
Var 36h NI row2-row1	0.94737	0.706
Var 60h I row2-row1	1.04546	1
Var 60h NI row2-row1	0.85491	0.483
Time course 0hI-0hNI	1.08665	0.719
Time course 12hI-12hNI	1.21912	0.022
Time course 36hI-36hNI	1.54882	0.005
Time course 60hI-60hNI	1.31717	0.042

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)	1.24309	0.571
transgenic ySAMdc/azygous control (breaker)	0.42279	0.131
transgenic ySAMdc/azygous control (red)	1.37354	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.23904	0.163

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.48498	0.238

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.02467	1
Manapal/WT (break)	0.48156	0.299
Manapal/WT (red)	0.80327	0.181