Tomato Functional Genomics Database (TFGD)

Expression of 1-1-7.2.6.19

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.98186	0.811
27DAP/17DAP	1.13151	0.883
39DAP/27DAP	1.03041	0.733
41DAP/39DAP	1.66425	0.276
42DAP/41DAP	1.07098	1
43DAP/42DAP	1.02945	0.937
47DAP/43DAP	1.00056	0.902
52DAP/47DAP	1.53494	0.355
57DAP/52DAP	1.07621	1

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.95227	0.336
17DAP/reference	0.93483	0.298
27DAP/reference	1.01433	0.894
39DAP/reference	1.16023	0.486
41DAP/reference	1.14849	0.624
42DAP/reference	0.87819	0.003
43DAP/reference	0.93069	0.331
47DAP/reference	0.86763	0.003
52DAP/reference	0.76632	0.091
57DAP/reference	0.8495	0.034

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.0127	1
27DAP/17DAP	0.90727	0.418
39DAP/27DAP	1.04362	0.636
41DAP/39DAP	1.05835	1
42DAP/41DAP	1.03162	0.999
43DAP/42DAP	1.10374	0.513
47DAP/43DAP	1.07538	0.724
52DAP/47DAP	0.93353	0.66
57DAP/52DAP	0.97195	0.73
57DAP/7DAP	1.16275	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.71517	0.059
17DAP/reference	0.74792	0.011
27DAP/reference	0.80417	0.01
39DAP/reference	0.81503	0.013
41DAP/reference	0.75586	0.022
42DAP/reference	0.72159	0.01
43DAP/reference	0.71284	0.013
47DAP/reference	0.84321	0.128
52DAP/reference	0.70965	0.031
57DAP/reference	0.70023	0.009

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.9552	0.58
17DAP/reference	1.00718	0.961
27DAP/reference	0.89752	0.195
39DAP/reference	0.8563	0.105
41DAP/reference	0.82661	0.04
42DAP/reference	0.88568	0.03
43DAP/reference	0.9974	0.736
47DAP/reference	0.96446	0.328
52DAP/reference	0.99631	0.713
57DAP/reference	1.14317	0.236

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.80161	0.047
17DAP/reference	0.94937	0.452
27DAP/reference	0.83926	0.035
39DAP/reference	0.77152	0.01
41DAP/reference	0.82334	0.025
42DAP/reference	0.75479	0.017
43DAP/reference	0.73302	0.037
47DAP/reference	0.94088	0.306
52DAP/reference	0.88131	0.25
57DAP/reference	0.63487	0.02

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.97204	1
26DAP/20DAP	0.86816	0.512
34DAP/26DAP	1.07113	1
51DAP/34DAP	0.97598	0.816
52DAP/51DAP	1.0828	0.742
53DAP/52DAP	1.0862	0.678
55DAP/53DAP	1.0844	0.927
57DAP/55DAP	1.04801	0.955
62DAP/57DAP	1.50333	0.833
68DAP/62DAP	0.9463	0.81
68DAP/14DAP	1.04018	1

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.26265	0.527

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	1.0232	1
Mature Green Tomato/Ripe Tomato	0.79716	0.317
Immature Eggplant/Mature Eggplant	1.48328	0.065
Ripe Pepper/Ripe Tomato	1.07391	0.258
Mature Eggplant/Ripe Tomato	0.76668	1

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.00368	1
1-1-2/M82	0.95666	1
12-2/M82	1.00796	1
12-4/M82	1.02641	0.694
1-3/M82	1.05523	0.479
2-1-1/M82	1.11463
2-1/M82	1.14128
2-6/M82	1.12492	0.695
3-2/M82	0.88292	0.752
4-1-1/M82	0.9074	1
4-1/M82	0.89609	1
4-3-2/M82	0.95863	1
4-3/M82	0.86418	0.578
5-3/M82	0.98491	1
6-2/M82	1.24152	1
6-3/M82	1.0049	1
7-1/M82	1.14148
7-2/M82	0.91475	1
9-3-2/M82	0.82949	0.355

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	1.04518	0.277
IL2-6/WTpooled	1.17288	0.659
IL7-5/WTpooled	0.91702	1
IL7-3/WTpooled	0.80902	0.418
IL12-4/WTpooled	1.26014	0.546
IL1-4/WTpooled	1.08399	0.426
WT/WTpooled	1.10339	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	0.98538	1

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.02989	0.921
DC3000/delta hrp 6h	0.92703	0.95
DC3000/delta hrp 12h	1.31306	1
DC3000/delta hrp 24h	1.15082	0.165

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.26947	0.27
DC3000 delta B/DC3000 delta AB	1.07414	0.443

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	N/A	N/A
Exp 36h	1.49485	0.693
Exp 60h	1.79679	0.237

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

hybridization	ratio	FDR (corrected p value)
self-self	0.97202	1
Var 0h	0.94945	1
Var 12h I row2-row1	1.17209	0.196
Var 12h NI row2-row1	1.01664	1
Var 36h I row2-row1	0.98769	1
Var 36h NI row2-row1	0.81733	0.522
Var 60h I row2-row1	0.93802	0.287
Var 60h NI row2-row1	1.01687	1
Time course 0hI-0hNI	1.07415	0.799
Time course 12hI-12hNI	1.0695	0.599
Time course 36hI-36hNI	1.10607	0.19
Time course 60hI-60hNI	1.42707	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)	1.04704	0.511
transgenic ySAMdc/azygous control (breaker)	1.06705	1
transgenic ySAMdc/azygous control (red)	0.87546	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.05351	0.135

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	N/A	N/A

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)	0.74877	0.333
Manapal/WT (red)	0.99754	1