Tomato Functional Genomics Database (TFGD)

Expression of 1-1-2.4.1.18

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.1952	0.205
27DAP/17DAP	1.06819	0.89
39DAP/27DAP	0.88698	0.529
41DAP/39DAP	1.50717	0.328
42DAP/41DAP	1.04007	1
43DAP/42DAP	0.89705	0.799
47DAP/43DAP	0.68398	0.205
52DAP/47DAP	2.4145	0.721
57DAP/52DAP	0.55979	0.47

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.89261	0.066
17DAP/reference	0.86587	0.012
27DAP/reference	0.9206	0.232
39DAP/reference	0.93676	0.267
41DAP/reference	0.8233	0.021
42DAP/reference	0.92642	0.081
43DAP/reference	0.83377	0.019
47DAP/reference	0.9563	0.3
52DAP/reference	1.13928	0.354
57DAP/reference	1.19836	0.043

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.95925	0.629
27DAP/17DAP	0.92714	0.821
39DAP/27DAP	0.93396	0.594
41DAP/39DAP	0.93554	0.849
42DAP/41DAP	0.97156	0.7
43DAP/42DAP	0.83814	0.181
47DAP/43DAP	0.88104	0.243
52DAP/47DAP	0.98748	0.93
57DAP/52DAP	0.85159	0.13
57DAP/7DAP	1.82792	0.23

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.84353	0.146
17DAP/reference	0.85749	0.044
27DAP/reference	0.76747	0.01
39DAP/reference	0.69707	0.011
41DAP/reference	0.75116	0.036
42DAP/reference	0.7647	0.02
43DAP/reference	0.61673	0.011
47DAP/reference	0.78751	0.168
52DAP/reference	0.61683	0.012
57DAP/reference	0.62943	0.007

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.97823	0.706
17DAP/reference	0.84737	0.015
27DAP/reference	0.96844	0.393
39DAP/reference	1.28947	0.335
41DAP/reference	0.95948	0.331
42DAP/reference	1.07494	0.569
43DAP/reference	1.00154	0.761
47DAP/reference	0.87865	0.026
52DAP/reference	1.09988	1
57DAP/reference	0.99311	0.834

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.78392	0.04
17DAP/reference	0.99212	0.709
27DAP/reference	0.72051	0.032
39DAP/reference	0.69292	0.013
41DAP/reference	0.95784	0.459
42DAP/reference	1.04257	1
43DAP/reference	0.96117	0.484
47DAP/reference	1.03584	0.901
52DAP/reference	0.74743	0.216
57DAP/reference	1.50103	0.129

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.05175	0.966
26DAP/20DAP	0.84459	1
34DAP/26DAP	0.94024	0.898
51DAP/34DAP	1.16031	0.692
52DAP/51DAP	1.34017	0.304
53DAP/52DAP	1.06292	0.688
55DAP/53DAP	1.13615	0.576
57DAP/55DAP	0.93501	0.688
62DAP/57DAP	1.21599	0.257
68DAP/62DAP	1.88753	0.113
68DAP/14DAP	2.59554	0.021

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.82733	0.239

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	N/A	N/A
Mature Green Tomato/Ripe Tomato	3.14761	0.017
Immature Eggplant/Mature Eggplant	1.74144	0.05
Ripe Pepper/Ripe Tomato	N/A	N/A
Mature Eggplant/Ripe Tomato	6.62344

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	0.97297	0.934
1-1-2/M82	1.00456	1
12-2/M82	1.15348
12-4/M82	1.13298	0.344
1-3/M82	0.79899	0.441
2-1-1/M82	N/A	N/A
2-1/M82	N/A	N/A
2-6/M82	0.98628	1
3-2/M82	N/A	N/A
4-1-1/M82	1.1941	1
4-1/M82	1.42577
4-3-2/M82	N/A	N/A
4-3/M82	0.69575
5-3/M82	1.00142	1
6-2/M82	0.79604	0.497
6-3/M82	N/A	N/A
7-1/M82	N/A	N/A
7-2/M82	0.95833	1
9-3-2/M82	N/A	N/A

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	1.79635	0.277
IL2-6/WTpooled	2.0173
IL7-5/WTpooled	1.04158
IL7-3/WTpooled	7.23026	1
IL12-4/WTpooled	0.7077	0.71
IL1-4/WTpooled	2.47696	0.426
WT/WTpooled	1.05019	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	0.85852	0.497

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.12665	0.692
DC3000/delta hrp 6h	0.92206	0.95
DC3000/delta hrp 12h	1.15467	1
DC3000/delta hrp 24h	0.95898	0.808

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	N/A	N/A
DC3000 delta B/DC3000 delta AB	N/A	N/A

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	0.97363	1
Var 0h	0.57513	1
Var 12h I row2-row1	1.05046	0.58
Var 12h NI row2-row1	0.80807	0.384
Var 36h I row2-row1	0.83143	0.805
Var 36h NI row2-row1	1.68372	1
Var 60h I row2-row1	1.22114	0.562
Var 60h NI row2-row1	1.19439	0.904
Time course 0hI-0hNI	1.03665	0.833
Time course 12hI-12hNI	0.9268	0.316
Time course 36hI-36hNI	0.88416	0.027
Time course 60hI-60hNI	0.89351	0.081

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)	0.85147	0.454
transgenic ySAMdc/azygous control (breaker)	1.07779	1
transgenic ySAMdc/azygous control (red)	1.17974	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.07359	0.035

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.25349	0.277

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.47871	0.172
Manapal/WT (break)	0.69877	0.285
Manapal/WT (red)	0.87633	0.503