Tomato Functional Genomics Database (TFGD)

Expression of 1-1-5.3.4.21

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.90199	0.522
27DAP/17DAP	0.68557	0.166
39DAP/27DAP	0.71821	0.327
41DAP/39DAP	1.09424	0.772
42DAP/41DAP	1.07233	1
43DAP/42DAP	0.93289	0.834
47DAP/43DAP	0.92802	0.716
52DAP/47DAP	1.42811	0.362
57DAP/52DAP	0.76575	0.666

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.05259	0.29
17DAP/reference	0.92079	0.022
27DAP/reference	0.96953	0.497
39DAP/reference	0.77634	0.016
41DAP/reference	0.77514	0.341
42DAP/reference	0.81546	0.001
43DAP/reference	0.61123
47DAP/reference	0.90885	0.3
52DAP/reference	0.8331	0.013
57DAP/reference	0.8156

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.96543	0.542
27DAP/17DAP	0.94809	0.614
39DAP/27DAP	0.89114	0.361
41DAP/39DAP	1.06278	0.817
42DAP/41DAP	0.96273	0.67
43DAP/42DAP	0.92764	0.383
47DAP/43DAP	1.05935	0.844
52DAP/47DAP	0.99976	0.962
57DAP/52DAP	0.99128	0.833
57DAP/7DAP	0.81411	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.33433	0.032
17DAP/reference	0.9474	0.056
27DAP/reference	0.82784	0.017
39DAP/reference	0.84573	0.012
41DAP/reference	0.78003	0.013
42DAP/reference	0.73589	0.01
43DAP/reference	0.73028	0.011
47DAP/reference	0.68738	0.033
52DAP/reference	0.75249	0.013
57DAP/reference	0.75223	0.006

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.98994	0.884
17DAP/reference	0.88178	0.037
27DAP/reference	0.95564	0.423
39DAP/reference	0.72532	0.008
41DAP/reference	0.88611	0.124
42DAP/reference	0.7865	0.016
43DAP/reference	0.8287	0.06
47DAP/reference	0.71589	0.013
52DAP/reference	0.6531	0.004
57DAP/reference	0.78768	0.017

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.73192	0.016
17DAP/reference	1.39737	0.111
27DAP/reference	1.01696	0.777
39DAP/reference	0.99256	0.693
41DAP/reference	0.87515	0.043
42DAP/reference	0.74189	0.016
43DAP/reference	0.76523	0.023
47DAP/reference	0.70665	0.007
52DAP/reference	0.74417	0.101
57DAP/reference	0.92853	0.278

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.03586	1
26DAP/20DAP	0.85721	0.512
34DAP/26DAP	0.93335	0.565
51DAP/34DAP	0.96027	0.703
52DAP/51DAP	1.1327	0.387
53DAP/52DAP	1.04263	0.858
55DAP/53DAP	1.08789	0.782
57DAP/55DAP	1.23339	0.242
62DAP/57DAP	1.00306	1
68DAP/62DAP	1.20596	0.367
68DAP/14DAP	0.9698	1

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.86277	0.304

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	3.76107	0.058
Mature Green Tomato/Ripe Tomato	1.50737	0.021
Immature Eggplant/Mature Eggplant	0.36135	0.057
Ripe Pepper/Ripe Tomato	15.174	0.258
Mature Eggplant/Ripe Tomato	39.6512	0.26

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	0.9475	0.944
1-1-2/M82	0.78388	1
12-2/M82	1.07271	1
12-4/M82	0.95695	0.619
1-3/M82	0.79825	0.378
2-1-1/M82	N/A	N/A
2-1/M82	1.14436	1
2-6/M82	1.00866	1
3-2/M82	0.89459	1
4-1-1/M82	1.11544	1
4-1/M82	1.01175
4-3-2/M82	0.6111
4-3/M82	0.75159	0.72
5-3/M82	1.01931	1
6-2/M82	0.93225	1
6-3/M82	0.91451	0.715
7-1/M82	N/A	N/A
7-2/M82	1.05456	1
9-3-2/M82	0.67865	0.355

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	0.69682	0.243
IL2-6/WTpooled	1.08142	0.659
IL7-5/WTpooled	0.99042	1
IL7-3/WTpooled	0.55966	0.294
IL12-4/WTpooled	0.77197	0.71
IL1-4/WTpooled	0.81957	0.562
WT/WTpooled	0.95552	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	0.97884	1

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.9246	1
DC3000/delta hrp 6h	0.9506	0.95
DC3000/delta hrp 12h	1.30785
DC3000/delta hrp 24h	0.93239	0.473

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	0.58525
DC3000 delta B/DC3000 delta AB	0.37237	0.02

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	0.8831	0.328
Exp 36h	0.81371	0.456
Exp 60h	0.78182	0.278

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

hybridization	ratio	FDR (corrected p value)
self-self	0.99373	1
Var 0h	0.88842	0.933
Var 12h I row2-row1	0.93998	0.565
Var 12h NI row2-row1	0.85732	0.546
Var 36h I row2-row1	1.16017	0.742
Var 36h NI row2-row1	0.90627	0.382
Var 60h I row2-row1	1.02203	1
Var 60h NI row2-row1	1.06431	0.904
Time course 0hI-0hNI	1.08686	0.262
Time course 12hI-12hNI	0.96641	0.687
Time course 36hI-36hNI	0.95511	0.344
Time course 60hI-60hNI	0.4978	0.007

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)	1.14224	0.431
transgenic ySAMdc/azygous control (breaker)	3.83882	0.162
transgenic ySAMdc/azygous control (red)	1.18204	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.8621	0.146

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.88211	0.237

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	4.54278	0.083
Manapal/WT (break)	17.6028	0.123
Manapal/WT (red)	4.80039	0.222