Tomato Functional Genomics Database (TFGD)

Expression of 1-1-2.3.12.10

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.03925	0.851
27DAP/17DAP	0.88971	0.751
39DAP/27DAP	1.01852	1
41DAP/39DAP	0.93159	0.678
42DAP/41DAP	0.97011	1
43DAP/42DAP	0.92955	0.813
47DAP/43DAP	1.3065	0.349
52DAP/47DAP	1.36074	0.374
57DAP/52DAP	0.98887	0.983

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.17104	0.207
17DAP/reference	1.17532	0.061
27DAP/reference	1.03224	0.82
39DAP/reference	1.04998	0.504
41DAP/reference	1.2775	0.079
42DAP/reference	1.07891	0.731
43DAP/reference	1.06668	0.403
47DAP/reference	1.04482	0.404
52DAP/reference	1.06728	0.524
57DAP/reference	0.89556	0.086

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.75559
27DAP/17DAP	1.36611	0.292
39DAP/27DAP	0.94609	0.768
41DAP/39DAP	1.59946	0.612
42DAP/41DAP	1.78104
43DAP/42DAP	0.78001
47DAP/43DAP	1.2357
52DAP/47DAP	0.9852	0.962
57DAP/52DAP	0.16005	0.116
57DAP/7DAP	N/A	N/A

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.84396	0.095
17DAP/reference	0.82588	0.014
27DAP/reference	0.863	0.013
39DAP/reference	0.8398	0.012
41DAP/reference	0.79097	0.016
42DAP/reference	0.80831	0.012
43DAP/reference	0.78323	0.012
47DAP/reference	0.91481	0.293
52DAP/reference	0.75752	0.017
57DAP/reference	0.86453	0.036

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.11383	0.226
17DAP/reference	1.24287	0.043
27DAP/reference	1.19099	0.195
39DAP/reference	1.21407	0.175
41DAP/reference	1.50775	0.011
42DAP/reference	1.18847	0.051
43DAP/reference	1.29146	0.035
47DAP/reference	1.08384	0.048
52DAP/reference	1.20272	0.012
57DAP/reference	1.16783	0.03

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.90663	0.092
17DAP/reference	1.0767	0.578
27DAP/reference	0.94385	0.465
39DAP/reference	0.82859	0.05
41DAP/reference	0.94984	0.371
42DAP/reference	1.07513	0.701
43DAP/reference	1.0883	0.71
47DAP/reference	1.17642	0.115
52DAP/reference	0.83752	0.25
57DAP/reference	1.16718	0.444

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.7235	1
26DAP/20DAP	N/A	N/A
34DAP/26DAP	2.52234
51DAP/34DAP	0.90726
52DAP/51DAP	0.3741
53DAP/52DAP	0.88476
55DAP/53DAP	1.43842	0.537
57DAP/55DAP	0.91838	0.799
62DAP/57DAP	1.15735	0.868
68DAP/62DAP	0.9624	0.834
68DAP/14DAP	0.72706	0.375

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.54708	0.034

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	0.90741	0.458
Mature Green Tomato/Ripe Tomato	1.07669	0.69
Immature Eggplant/Mature Eggplant	N/A	N/A
Ripe Pepper/Ripe Tomato	1.00083
Mature Eggplant/Ripe Tomato	0.59223	0.234

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	0.97485	0.944
1-1-2/M82	0.94493	0.958
12-2/M82	1.14279	0.61
12-4/M82	1.01957	1
1-3/M82	0.90029	0.378
2-1-1/M82	0.99039	1
2-1/M82	N/A	N/A
2-6/M82	1.12132	0.695
3-2/M82	N/A	N/A
4-1-1/M82	0.98965	1
4-1/M82	1.21986	0.401
4-3-2/M82	0.87916	1
4-3/M82	0.99576	1
5-3/M82	0.96361	1
6-2/M82	0.91661	1
6-3/M82	1.0309	1
7-1/M82	0.99322
7-2/M82	1.11753	0.385
9-3-2/M82	1.07409	1

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	N/A	N/A
IL2-6/WTpooled	N/A	N/A
IL7-5/WTpooled	N/A	N/A
IL7-3/WTpooled	N/A	N/A
IL12-4/WTpooled	N/A	N/A
IL1-4/WTpooled	1.61653
WT/WTpooled	N/A	N/A

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	N/A	N/A

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.00478	1
DC3000/delta hrp 6h	0.93323	0.95
DC3000/delta hrp 12h	0.90431	1
DC3000/delta hrp 24h	1.01089	0.797

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	0.96337	1
Exp 36h	0.83744	0.589
Exp 60h	0.8099	0.32

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

hybridization	ratio	FDR (corrected p value)
self-self	N/A	N/A
Var 0h	1.12548	0.936
Var 12h I row2-row1	N/A	N/A
Var 12h NI row2-row1	N/A	N/A
Var 36h I row2-row1	N/A	N/A
Var 36h NI row2-row1	N/A	N/A
Var 60h I row2-row1	N/A	N/A
Var 60h NI row2-row1	N/A	N/A
Time course 0hI-0hNI	N/A	N/A
Time course 12hI-12hNI	N/A	N/A
Time course 36hI-36hNI	N/A	N/A
Time course 60hI-60hNI	N/A	N/A

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)	1.03644	0.798
transgenic ySAMdc/azygous control (breaker)	0.92808	0.251
transgenic ySAMdc/azygous control (red)	1.01525	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.97453	0.208

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.25572	0.277

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.24087	0.307
Manapal/WT (break)	1.2761	1
Manapal/WT (red)	N/A	N/A