Tomato Functional Genomics Database (TFGD)

Expression of 1-1-7.2.13.8

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.00864	0.927
27DAP/17DAP	1.30457	0.761
39DAP/27DAP	1.11351	0.75
41DAP/39DAP	1.03832	0.992
42DAP/41DAP	0.90728	1
43DAP/42DAP	2.01316	0.148
47DAP/43DAP	0.62565	0.107
52DAP/47DAP	1.35365	0.798
57DAP/52DAP	1.06001	0.992

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.84396	0.068
17DAP/reference	0.98297	0.737
27DAP/reference	1.09778	0.384
39DAP/reference	1.03303	0.771
41DAP/reference	0.95977	0.542
42DAP/reference	1.0761	1
43DAP/reference	1.09308	0.34
47DAP/reference	0.98817	0.602
52DAP/reference	0.7979	0.162
57DAP/reference	0.8925	0.377

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.91966	0.484
27DAP/17DAP	1.36486	0.042
39DAP/27DAP	0.88961	0.3
41DAP/39DAP	0.93947	0.861
42DAP/41DAP	0.96815	0.746
43DAP/42DAP	1.10566	0.627
47DAP/43DAP	1.21503	0.456
52DAP/47DAP	1.02858	0.956
57DAP/52DAP	1.08728	0.622
57DAP/7DAP	0.9816	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.12129	0.377
17DAP/reference	1.18787	0.045
27DAP/reference	1.37977	0.015
39DAP/reference	3.26953	0.267
41DAP/reference	1.4549	0.008
42DAP/reference	1.24209	0.046
43DAP/reference	1.3119	0.028
47DAP/reference	1.37392	0.205
52DAP/reference	1.12779	0.029
57DAP/reference	1.24432	0.017

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.01827	0.97
17DAP/reference	0.89213	0.201
27DAP/reference	0.85312	0.053
39DAP/reference	0.95035	0.404
41DAP/reference	0.76633	0.026
42DAP/reference	0.94797	0.321
43DAP/reference	0.95992	0.507
47DAP/reference	0.9972	0.695
52DAP/reference	0.7462	0.01
57DAP/reference	0.71716	0.194

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.05013	0.758
17DAP/reference	0.95163	0.537
27DAP/reference	1.08741	0.227
39DAP/reference	1.11211	0.275
41DAP/reference	0.95994	0.56
42DAP/reference	1.21699	0.167
43DAP/reference	1.05031	0.855
47DAP/reference	0.90707	0.371
52DAP/reference	1.30093	0.167
57DAP/reference	0.8956	0.18

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.75366	0.611
26DAP/20DAP	1.68812	0.113
34DAP/26DAP	0.87375	0.61
51DAP/34DAP	1.34764	0.062
52DAP/51DAP	0.77561	0.151
53DAP/52DAP	1.11742	0.697
55DAP/53DAP	0.86576	0.154
57DAP/55DAP	1.71422	0.037
62DAP/57DAP	0.7164	0.004
68DAP/62DAP	1.12793	0.939
68DAP/14DAP	0.97807	1

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.3276	0.02

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	0.6362	0.168
Mature Green Tomato/Ripe Tomato	1.18554	0.69
Immature Eggplant/Mature Eggplant	1.08029
Ripe Pepper/Ripe Tomato	7.41837	0.256
Mature Eggplant/Ripe Tomato	0.95706	1

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.33204	0.877
1-1-2/M82	1.11682	1
12-2/M82	0.7616	0.955
12-4/M82	1.08071	1
1-3/M82	1.01914	1
2-1-1/M82	1.38743	0.439
2-1/M82	1.29599	1
2-6/M82	1.21561	0.425
3-2/M82	1.0778
4-1-1/M82	0.8381
4-1/M82	0.77259	0.665
4-3-2/M82	0.89773	1
4-3/M82	0.96878	1
5-3/M82	1.03235	1
6-2/M82	0.99767	1
6-3/M82	0.90838	1
7-1/M82	0.89144	1
7-2/M82	0.94317	1
9-3-2/M82	0.93339

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	N/A	N/A
IL2-6/WTpooled	1.32478	0.456
IL7-5/WTpooled	N/A	N/A
IL7-3/WTpooled	0.79551	0.418
IL12-4/WTpooled	0.97363	1
IL1-4/WTpooled	1.17477
WT/WTpooled	1.05874	0.874

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	1.10572	0.853

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.04024	0.921
DC3000/delta hrp 6h	1.01041	1
DC3000/delta hrp 12h	1.08854	1
DC3000/delta hrp 24h	1.30548	0.264

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.42642	0.044
DC3000 delta B/DC3000 delta AB	0.52818	0.203

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	1.02097	1
Exp 36h	1.29407	0.489
Exp 60h	1.53172	0.227

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

hybridization	ratio	FDR (corrected p value)
self-self	1.02992	1
Var 0h	0.87065	1
Var 12h I row2-row1	0.99441	1
Var 12h NI row2-row1	0.80458	1
Var 36h I row2-row1	1.05853	1
Var 36h NI row2-row1	0.74741	0.522
Var 60h I row2-row1	0.84267	0.582
Var 60h NI row2-row1	0.87572	0.69
Time course 0hI-0hNI	0.99675	0.991
Time course 12hI-12hNI	1.1116	0.158
Time course 36hI-36hNI	1.79897	0.004
Time course 60hI-60hNI	3.00511	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)	0.87515	0.255
transgenic ySAMdc/azygous control (breaker)	1.0145	1
transgenic ySAMdc/azygous control (red)	1.0932	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.08772	0.08

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.17599	1

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.96252	1
Manapal/WT (break)	0.65965	0.333
Manapal/WT (red)	0.76022	0.184