Tomato Functional Genomics Database (TFGD)

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Expression of 1-1-5.2.12.6

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.98339	0.83
27DAP/17DAP	1.53305	0.804
39DAP/27DAP	0.87423	0.397
41DAP/39DAP	1.18589	0.938
42DAP/41DAP	1.1041	1
43DAP/42DAP	0.84745	0.801
47DAP/43DAP	1.08477	0.429
52DAP/47DAP	1.07897	0.991
57DAP/52DAP	1.09754	1

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.00637	0.693
17DAP/reference	1.20484	0.036
27DAP/reference	1.40405	0.047
39DAP/reference	1.44849	0.068
41DAP/reference	1.86324	0.014
42DAP/reference	1.24137	0.01
43DAP/reference	1.18456	0.126
47DAP/reference	1.20374	0.329
52DAP/reference	1.34363	0.045
57DAP/reference	1.20381	0.529

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.09947	0.699
27DAP/17DAP	1.18035	0.719
39DAP/27DAP	1.03611	1
41DAP/39DAP	0.73968	0.051
42DAP/41DAP	1.20451	0.446
43DAP/42DAP	1.29068	0.413
47DAP/43DAP	0.92733	0.722
52DAP/47DAP	1.27431	0.397
57DAP/52DAP	1.26501	0.127
57DAP/7DAP	0.81914	N/A

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.80236	0.088
17DAP/reference	1.03715	0.525
27DAP/reference	1.30155	0.03
39DAP/reference	0.91169	0.056
41DAP/reference	0.93061	0.247
42DAP/reference	0.96011	0.304
43DAP/reference	1.00217	0.727
47DAP/reference	0.76809	0.222
52DAP/reference	0.94032	0.332
57DAP/reference	0.93276	0.232

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.08449	0.993
17DAP/reference	1.6919	0.03
27DAP/reference	1.7321	0.051
39DAP/reference	1.5885	0.146
41DAP/reference	1.45338	0.007
42DAP/reference	1.9364	0.007
43DAP/reference	2.26483	0.009
47DAP/reference	1.86708	0.009
52DAP/reference	1.53148	0.069
57DAP/reference	1.76547	0.043

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.78827	0.098
17DAP/reference	1.19344	0.431
27DAP/reference	1.24205	0.137
39DAP/reference	1.2885	0.084
41DAP/reference	1.19377	0.052
42DAP/reference	1.29792	0.194
43DAP/reference	0.93075	0.398
47DAP/reference	1.06815	0.994
52DAP/reference	0.92761	0.395
57DAP/reference	1.195	0.192

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.21867	N/A
26DAP/20DAP	0.92423	1
34DAP/26DAP	1.33891	0.542
51DAP/34DAP	1.01922	0.937
52DAP/51DAP	1.10181	0.954
53DAP/52DAP	0.92995	0.824
55DAP/53DAP	1.23048	0.653
57DAP/55DAP	1.13712	0.805
62DAP/57DAP	0.87972	0.28
68DAP/62DAP	1.02705	1
68DAP/14DAP	0.63578	N/A

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.79381	0.028

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	N/A	N/A
Mature Green Tomato/Ripe Tomato	0.75438	0.411
Immature Eggplant/Mature Eggplant	N/A	N/A
Ripe Pepper/Ripe Tomato	N/A	N/A
Mature Eggplant/Ripe Tomato	0.38455	N/A

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.62593	N/A
1-1-2/M82	N/A	N/A
12-2/M82	N/A	N/A
12-4/M82	1.2072	0.655
1-3/M82	0.6999	N/A
2-1-1/M82	N/A	N/A
2-1/M82	N/A	N/A
2-6/M82	0.96923	N/A
3-2/M82	0.52877	N/A
4-1-1/M82	N/A	N/A
4-1/M82	N/A	N/A
4-3-2/M82	0.74468	0.37
4-3/M82	N/A	N/A
5-3/M82	0.89869	1
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	N/A	N/A
IL2-6/WTpooled	0.89006	0.473
IL7-5/WTpooled	N/A	N/A
IL7-3/WTpooled	0.90774	1
IL12-4/WTpooled	1.00855	1
IL1-4/WTpooled	0.94142	0.834
WT/WTpooled	0.96037	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	1.60878	0.699

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.10957	0.894
DC3000/delta hrp 6h	N/A	N/A
DC3000/delta hrp 12h	0.50333	N/A
DC3000/delta hrp 24h	0.99273	1

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	0.52938	0.105
DC3000 delta B/DC3000 delta AB	0.63435	0.025

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	N/A	N/A
Exp 36h	N/A	N/A
Exp 60h	N/A	N/A

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

hybridization	ratio	FDR (corrected p value)
self-self	0.9934	1
Var 0h	0.35229	1
Var 12h I row2-row1	0.86816	0.705
Var 12h NI row2-row1	0.88268	0.82
Var 36h I row2-row1	0.94121	0.202
Var 36h NI row2-row1	1.09872	0.482
Var 60h I row2-row1	1.01472	1
Var 60h NI row2-row1	1.06612	0.904
Time course 0hI-0hNI	0.94667	0.475
Time course 12hI-12hNI	0.9507	0.275
Time course 36hI-36hNI	0.91342	0.202
Time course 60hI-60hNI	0.37297	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)	0.63725	0.362
transgenic ySAMdc/azygous control (breaker)	0.89295	0.49
transgenic ySAMdc/azygous control (red)	1.14002	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.88978	0.051

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.96692	0.35

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	N/A	N/A
Manapal/WT (break)	1.16098	0.381
Manapal/WT (red)	N/A	N/A