Tomato Functional Genomics Database (TFGD)

Expression of 1-1-1.4.19.6

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.39146	0.381
27DAP/17DAP	1.89185	0.24
39DAP/27DAP	1.54511	0.232
41DAP/39DAP	0.76837	0.27
42DAP/41DAP	1.09398	1
43DAP/42DAP	2.0786	0.047
47DAP/43DAP	1.2805	0.647
52DAP/47DAP	0.93062	0.705
57DAP/52DAP	1.08546	0.983

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.95429	0.513
17DAP/reference	0.89335	0.393
27DAP/reference	1.36444	0.58
39DAP/reference	1.48277	0.026
41DAP/reference	1.50066	0.026
42DAP/reference	2.04508	0.001
43DAP/reference	1.33367	0.031
47DAP/reference	2.17666	0.001
52DAP/reference	1.67631	0.038
57DAP/reference	1.72753	0.008

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.02065	1
27DAP/17DAP	1.08316	0.822
39DAP/27DAP	1.34024	0.132
41DAP/39DAP	0.79089	0.093
42DAP/41DAP	1.0901	0.675
43DAP/42DAP	1.44541	0.02
47DAP/43DAP	0.95052	0.774
52DAP/47DAP	1.1157	0.718
57DAP/52DAP	1.61691	0.036
57DAP/7DAP	1.80911	0.204

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.58605	0.059
17DAP/reference	0.77358	0.011
27DAP/reference	1.01094	0.8
39DAP/reference	0.89862	0.17
41DAP/reference	1.06316	0.577
42DAP/reference	1.47945	0.03
43DAP/reference	1.6995	0.007
47DAP/reference	1.77301	0.014
52DAP/reference	1.14087	0.526
57DAP/reference	1.11287	0.232

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.61474	0.027
17DAP/reference	1.31549	0.181
27DAP/reference	0.93615	0.438
39DAP/reference	0.97664	0.509
41DAP/reference	1.18416	0.382
42DAP/reference	1.25038	0.074
43DAP/reference	1.04195	0.892
47DAP/reference	1.38982	0.101
52DAP/reference	0.82073	0.171
57DAP/reference	0.99359	0.72

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.50891	0.034
17DAP/reference	0.69634	0.144
27DAP/reference	0.78836	0.049
39DAP/reference	0.79666	0.028
41DAP/reference	0.70453	0.043
42DAP/reference	1.35113	0.049
43DAP/reference	1.32842	0.123
47DAP/reference	1.90623	0.005
52DAP/reference	1.75671	0.051
57DAP/reference	1.63523	0.017

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.23665	0.966
26DAP/20DAP	1.32355	0.53
34DAP/26DAP	1.04317	1
51DAP/34DAP	1.16542	0.511
52DAP/51DAP	1.0961	0.534
53DAP/52DAP	1.11697	0.58
55DAP/53DAP	0.8128	0.062
57DAP/55DAP	1.29959	0.301
62DAP/57DAP	1.15284	0.569
68DAP/62DAP	1.15627	0.737
68DAP/14DAP	N/A	N/A

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.67071	0.014

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	N/A	N/A
Mature Green Tomato/Ripe Tomato	0.46005	0.017
Immature Eggplant/Mature Eggplant	N/A	N/A
Ripe Pepper/Ripe Tomato	0.31822	1
Mature Eggplant/Ripe Tomato	0.40319	0.234

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	0.79569
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	0.9875
4-1-1/M82	0.61373
4-1/M82	1.52701
4-3-2/M82	N/A	N/A
4-3/M82	N/A	N/A
5-3/M82	1.26498	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	1.00926

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	1.28129
IL2-6/WTpooled	1.23031	0.659
IL7-5/WTpooled	1.13224	1
IL7-3/WTpooled	1.61796	1
IL12-4/WTpooled	0.96093	1
IL1-4/WTpooled	1.02153	0.34
WT/WTpooled	1.05099	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	0.93709	0.75

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.96762	1
DC3000/delta hrp 6h	N/A	N/A
DC3000/delta hrp 12h	1.26531
DC3000/delta hrp 24h	1.08829	0.567

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.00257	1
DC3000 delta B/DC3000 delta AB	1.15085	0.535

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	0.97644
Var 0h	0.97788	1
Var 12h I row2-row1	1.09604	0.692
Var 12h NI row2-row1	1.11964	0.649
Var 36h I row2-row1	1.15118	0.309
Var 36h NI row2-row1	1.49988	1
Var 60h I row2-row1	0.90778	0.439
Var 60h NI row2-row1	1.04936	1
Time course 0hI-0hNI	0.94578	0.675
Time course 12hI-12hNI	1.05705	0.684
Time course 36hI-36hNI	1.08747	0.28
Time course 60hI-60hNI	0.46327	0.006

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)	1.69132	0.541
transgenic ySAMdc/azygous control (breaker)	1.05539	1
transgenic ySAMdc/azygous control (red)	1.02456	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.20319	0.077

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.93413	0.284

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)	N/A	N/A
Manapal/WT (red)	1.11508	0.413