Tomato Functional Genomics Database (TFGD)

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Expression of 1-1-5.4.9.1

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.01769	0.839
27DAP/17DAP	0.85369	0.609
39DAP/27DAP	1.01364	1
41DAP/39DAP	0.97065	0.871
42DAP/41DAP	0.99462	1
43DAP/42DAP	1.08076	1
47DAP/43DAP	1.12649	0.633
52DAP/47DAP	0.8609	0.562
57DAP/52DAP	0.98999	0.983

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.80483	0.064
17DAP/reference	1.023	0.565
27DAP/reference	0.91662	0.114
39DAP/reference	0.99486	0.901
41DAP/reference	0.97665	0.667
42DAP/reference	0.8263	0.008
43DAP/reference	0.93247	0.259
47DAP/reference	0.85727	0.006
52DAP/reference	0.862	0.089
57DAP/reference	0.85287	0.013

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.22969	0.205
27DAP/17DAP	0.91556	0.684
39DAP/27DAP	0.81446	0.069
41DAP/39DAP	1.04693	0.807
42DAP/41DAP	1.03511	0.999
43DAP/42DAP	0.98021	0.774
47DAP/43DAP	1.01074	0.956
52DAP/47DAP	1.01114	0.979
57DAP/52DAP	0.89727	0.379
57DAP/7DAP	0.89592	N/A

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.70855	0.078
17DAP/reference	0.90922	0.22
27DAP/reference	0.88498	0.117
39DAP/reference	0.93351	0.354
41DAP/reference	0.76761	0.031
42DAP/reference	1.01575	0.828
43DAP/reference	0.84329	0.047
47DAP/reference	0.80755	0.038
52DAP/reference	0.88707	0.163
57DAP/reference	0.76659	0.014

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.87247	0.176
17DAP/reference	0.83763	0.021
27DAP/reference	0.80559	0.021
39DAP/reference	0.80059	0.091
41DAP/reference	0.95397	0.322
42DAP/reference	0.76971	0.021
43DAP/reference	1.11943	0.473
47DAP/reference	0.86267	0.017
52DAP/reference	0.75576	0.012
57DAP/reference	0.86666	0.125

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.86348	0.135
17DAP/reference	0.84687	0.214
27DAP/reference	0.81815	0.081
39DAP/reference	0.87577	0.018
41DAP/reference	0.8911	0.096
42DAP/reference	0.86942	0.287
43DAP/reference	0.85709	0.171
47DAP/reference	0.86225	0.153
52DAP/reference	0.93442	0.482
57DAP/reference	0.85759	0.046

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.03165	1
26DAP/20DAP	1.08981	0.683
34DAP/26DAP	0.95044	0.675
51DAP/34DAP	0.81288	0.108
52DAP/51DAP	1.00899	0.925
53DAP/52DAP	0.89939	0.562
55DAP/53DAP	0.96374	0.807
57DAP/55DAP	1.27714	0.231
62DAP/57DAP	1.27957	0.569
68DAP/62DAP	1.23558	0.481
68DAP/14DAP	1.05478	0.936

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.07073	0.391

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	0.0348	0.071
Mature Green Tomato/Ripe Tomato	1.40087	0.07
Immature Eggplant/Mature Eggplant	N/A	N/A
Ripe Pepper/Ripe Tomato	27.6573	0.258
Mature Eggplant/Ripe Tomato	1.8174	N/A

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.4865	N/A
1-1-2/M82	1.00549	1
12-2/M82	1.48839	N/A
12-4/M82	1.00922	N/A
1-3/M82	N/A	N/A
2-1-1/M82	0.84792	N/A
2-1/M82	1.74193	N/A
2-6/M82	N/A	N/A
3-2/M82	0.95337	1
4-1-1/M82	N/A	N/A
4-1/M82	1.08122	N/A
4-3-2/M82	1.01799	N/A
4-3/M82	1.53843	1
5-3/M82	1.01158	1
6-2/M82	N/A	N/A
6-3/M82	N/A	N/A
7-1/M82	0.96436	N/A
7-2/M82	2.16747	0.291
9-3-2/M82	0.95062	1

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	0.85504	N/A
IL2-6/WTpooled	1.44298	0.659
IL7-5/WTpooled	N/A	N/A
IL7-3/WTpooled	1.26392	N/A
IL12-4/WTpooled	1.10147	0.673
IL1-4/WTpooled	N/A	N/A
WT/WTpooled	1.00094	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	1.44735	0.853

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.91114	0.868
DC3000/delta hrp 6h	0.75849	0.801
DC3000/delta hrp 12h	1.17077	1
DC3000/delta hrp 24h	0.49942	0.034

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	0.76594	0.036
DC3000 delta B/DC3000 delta AB	0.57295	0.021

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	1.4766	1
Exp 36h	1.6223	0.326
Exp 60h	1.87134	0.283

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

hybridization	ratio	FDR (corrected p value)
self-self	0.99964	1
Var 0h	0.87444	1
Var 12h I row2-row1	0.9538	0.363
Var 12h NI row2-row1	0.91998	0.488
Var 36h I row2-row1	1.03582	1
Var 36h NI row2-row1	1.0847	1
Var 60h I row2-row1	1.27218	0.562
Var 60h NI row2-row1	0.96229	0.866
Time course 0hI-0hNI	0.98415	0.955
Time course 12hI-12hNI	1.0372	0.684
Time course 36hI-36hNI	1.01824	0.799
Time course 60hI-60hNI	0.65494	0.026

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)	0.98501	0.662
transgenic ySAMdc/azygous control (breaker)	1.73311	0.248
transgenic ySAMdc/azygous control (red)	3.29845	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.93371	0.115

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.69993	0.238

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)	0.68477	1
Manapal/WT (red)	0.57702	0.181