Tomato Functional Genomics Database (TFGD)

Expression of 1-1-2.2.6.5

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.36972	0.23
27DAP/17DAP	1.2592	0.785
39DAP/27DAP	1.62996	0.548
41DAP/39DAP	1.70986	0.225
42DAP/41DAP	2.61594	0.018
43DAP/42DAP	1.53741	0.861
47DAP/43DAP	0.93958	0.779
52DAP/47DAP	0.60498	0.102
57DAP/52DAP	1.11551	0.92

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.80524	0.03
17DAP/reference	1.06088	0.492
27DAP/reference	1.08174	0.478
39DAP/reference	1.07701	0.474
41DAP/reference	1.16983	0.102
42DAP/reference	1.03888	1
43DAP/reference	1.28508	0.02
47DAP/reference	0.94821	0.322
52DAP/reference	0.82393	0.075
57DAP/reference	0.98407	0.58

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.94763	0.629
27DAP/17DAP	0.56661	0.134
39DAP/27DAP	3.37578	0.044
41DAP/39DAP	0.28598	0.013
42DAP/41DAP	3.94235	0.002
43DAP/42DAP	5.31177	0.013
47DAP/43DAP	0.93631	0.696
52DAP/47DAP	1.19422	0.724
57DAP/52DAP	0.74558	0.177
57DAP/7DAP	4.98185	0.22

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.50567	0.069
17DAP/reference	0.38895	0.011
27DAP/reference	0.42328	0.01
39DAP/reference	0.6501	0.017
41DAP/reference	0.62228	0.019
42DAP/reference	0.96321	0.482
43DAP/reference	1.26239	0.167
47DAP/reference	1.76174	0.235
52DAP/reference	0.63962	0.012
57DAP/reference	0.4813	0.012

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.78317	0.197
17DAP/reference	0.93475	0.41
27DAP/reference	0.73776	0.033
39DAP/reference	0.81533	0.016
41DAP/reference	0.94546	0.242
42DAP/reference	0.76824	0.073
43DAP/reference	0.72452	0.128
47DAP/reference	0.88933	0.154
52DAP/reference	1.16114	0.009
57DAP/reference	1.12879	0.771

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.41021	0.027
17DAP/reference	0.89347	0.335
27DAP/reference	0.49122	0.037
39DAP/reference	0.51781	0.01
41DAP/reference	0.51081	0.023
42DAP/reference	1.6121	0.364
43DAP/reference	1.4498	0.1
47DAP/reference	1.27964	0.388
52DAP/reference	1.59052	0.083
57DAP/reference	0.78423	0.042

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.85512	0.915
26DAP/20DAP	1.05188	1
34DAP/26DAP	1.2527	1
51DAP/34DAP	0.95795	0.816
52DAP/51DAP	1.07986	0.783
53DAP/52DAP	1.02744	0.91
55DAP/53DAP	1.1795	0.869
57DAP/55DAP	1.20409	0.826
62DAP/57DAP	0.70897
68DAP/62DAP	1.70437	0.091
68DAP/14DAP	1.30252	0.469

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	34.5708	0.014

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	N/A	N/A
Mature Green Tomato/Ripe Tomato	0.51744	0.06
Immature Eggplant/Mature Eggplant	N/A	N/A
Ripe Pepper/Ripe Tomato	0.12689
Mature Eggplant/Ripe Tomato	0.04092	0.234

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	0.58043
1-1-2/M82	1.0328	1
12-2/M82	1.21919
12-4/M82	1.26603	1
1-3/M82	N/A	N/A
2-1-1/M82	0.90005
2-1/M82	0.88928	0.345
2-6/M82	1.13562
3-2/M82	0.71871
4-1-1/M82	0.87846
4-1/M82	1.56073	0.853
4-3-2/M82	1.49747
4-3/M82	0.96681	1
5-3/M82	0.70255	1
6-2/M82	1.88518	0.235
6-3/M82	0.98808	1
7-1/M82	1.04359	1
7-2/M82	0.93342
9-3-2/M82	1.84126	0.196

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	0.82965	0.243
IL2-6/WTpooled	0.9199	1
IL7-5/WTpooled	N/A	N/A
IL7-3/WTpooled	1.08751	1
IL12-4/WTpooled	1.09515	1
IL1-4/WTpooled	0.9396	0.834
WT/WTpooled	0.92294	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	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	1.01924	0.921
DC3000/delta hrp 6h	N/A	N/A
DC3000/delta hrp 12h	1.17091	1
DC3000/delta hrp 24h	0.51341	0.034

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	0.77892	1
Exp 36h	N/A	N/A
Exp 60h	0.55462	0.253

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	0.9638	1
Var 12h I row2-row1	0.8764
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	1.13533	0.543
Var 60h NI row2-row1	1.15723
Time course 0hI-0hNI	N/A	N/A
Time course 12hI-12hNI	0.87365
Time course 36hI-36hNI	0.76135
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)	1.24831	0.798
transgenic ySAMdc/azygous control (breaker)	1.56588	0.248
transgenic ySAMdc/azygous control (red)	1.30357	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.0773	0.495

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.98799	1

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.2898	0.307
Manapal/WT (break)	0.73525	0.333
Manapal/WT (red)	0.31174	0.181