Tomato Functional Genomics Database (TFGD)

Expression of 1-1-8.2.12.9

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.00811	0.811
27DAP/17DAP	0.88308	0.741
39DAP/27DAP	0.77491	0.286
41DAP/39DAP	1.16993	0.722
42DAP/41DAP	0.96119	1
43DAP/42DAP	0.87176	0.801
47DAP/43DAP	1.05167	0.95
52DAP/47DAP	1.13377	1
57DAP/52DAP	1.12013	0.912

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.0085	0.55
17DAP/reference	0.70432	0.069
27DAP/reference	1.47228	0.052
39DAP/reference	1.08542	0.786
41DAP/reference	0.8486	0.267
42DAP/reference	1.58709	0.048
43DAP/reference	1.47147	0.011
47DAP/reference	2.04936	0.022
52DAP/reference	4.11188	0.008
57DAP/reference	3.49323	0.008

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.79784	0.062
27DAP/17DAP	1.16071	0.514
39DAP/27DAP	1.06415	0.548
41DAP/39DAP	0.83078	0.299
42DAP/41DAP	1.11959	0.663
43DAP/42DAP	0.99972	1
47DAP/43DAP	0.86613	0.175
52DAP/47DAP	2.04321	0.048
57DAP/52DAP	1.94009	0.035
57DAP/7DAP	2.95501	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.89374	0.203
17DAP/reference	0.81885	0.014
27DAP/reference	0.80322	0.01
39DAP/reference	0.89303	0.064
41DAP/reference	1.00063	0.589
42DAP/reference	0.83774	0.02
43DAP/reference	0.83742	0.011
47DAP/reference	1.69905	0.161
52DAP/reference	0.81492	0.017
57DAP/reference	0.7705	0.008

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.82638	0.204
17DAP/reference	0.84443	0.164
27DAP/reference	1.49101	0.107
39DAP/reference	1.97508	0.09
41DAP/reference	3.35952	0.005
42DAP/reference	2.10622	0.007
43DAP/reference	0.89427	0.292
47DAP/reference	1.61286	0.008
52DAP/reference	1.78076	0.014
57DAP/reference	1.27523	0.771

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.80799	0.045
17DAP/reference	0.92192	0.47
27DAP/reference	0.83026	0.038
39DAP/reference	0.8768	0.033
41DAP/reference	1.08749	0.984
42DAP/reference	1.804	0.34
43DAP/reference	1.83225	0.198
47DAP/reference	1.71291	0.196
52DAP/reference	0.84785	0.303
57DAP/reference	4.79399	0.009

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.87646	0.966
26DAP/20DAP	1.53948	0.347
34DAP/26DAP	1.59527	1
51DAP/34DAP	1.43327	0.637
52DAP/51DAP	2.47936	0.033
53DAP/52DAP	0.75014	0.126
55DAP/53DAP	1.39518	0.039
57DAP/55DAP	0.30064	0.01
62DAP/57DAP	1.62585	0.678
68DAP/62DAP	6.51564	0.035
68DAP/14DAP	8.76116	0.021

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.24775	0.019

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	N/A	N/A
Mature Green Tomato/Ripe Tomato	0.86413	0.287
Immature Eggplant/Mature Eggplant	0.62552	0.292
Ripe Pepper/Ripe Tomato	0.30355
Mature Eggplant/Ripe Tomato	2.3617	0.373

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.15138	0.591
1-1-2/M82	1.17	1
12-2/M82	0.89017	0.955
12-4/M82	1.01955	1
1-3/M82	N/A	N/A
2-1-1/M82	1.10903
2-1/M82	N/A	N/A
2-6/M82	N/A	N/A
3-2/M82	1.07984
4-1-1/M82	N/A	N/A
4-1/M82	0.70156	0.998
4-3-2/M82	0.8326	0.487
4-3/M82	N/A	N/A
5-3/M82	0.9458	1
6-2/M82	0.88205
6-3/M82	1.0749	1
7-1/M82	N/A	N/A
7-2/M82	N/A	N/A
9-3-2/M82	0.76396

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	1.12569	1
IL2-6/WTpooled	1.18047	0.531
IL7-5/WTpooled	0.90114	1
IL7-3/WTpooled	0.95065	1
IL12-4/WTpooled	0.93626	1
IL1-4/WTpooled	1.00976	1
WT/WTpooled	1.04515	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	0.87205	0.75

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.99718	1
DC3000/delta hrp 6h	1.27842	1
DC3000/delta hrp 12h	2.10022	1
DC3000/delta hrp 24h	0.79962	0.082

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	0.99208	1
DC3000 delta B/DC3000 delta AB	1.03165	0.726

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	1.20104	1
Exp 36h	0.79173	0.699
Exp 60h	0.88166	0.855

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

hybridization	ratio	FDR (corrected p value)
self-self	1.03036	1
Var 0h	0.93066	1
Var 12h I row2-row1	0.71765	0.39
Var 12h NI row2-row1	0.93786	0.546
Var 36h I row2-row1	0.89723	1
Var 36h NI row2-row1	1.12422	0.482
Var 60h I row2-row1	0.86203	0.285
Var 60h NI row2-row1	1.0094	1
Time course 0hI-0hNI	1.00054	1
Time course 12hI-12hNI	1.01941	0.811
Time course 36hI-36hNI	0.77486	0.055
Time course 60hI-60hNI	0.50718	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)	0.84783	0.377
transgenic ySAMdc/azygous control (breaker)	0.82403	0.251
transgenic ySAMdc/azygous control (red)	0.88098	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.8081	0.051

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.25547	0.238

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.52557	1
Manapal/WT (break)	0.84425	1
Manapal/WT (red)	1.11952	1