Tomato Functional Genomics Database (TFGD)

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Expression of 1-1-5.1.17.13

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.32727	0.561
27DAP/17DAP	0.98194	0.99
39DAP/27DAP	0.83267	0.353
41DAP/39DAP	1.35994	0.67
42DAP/41DAP	1.20693	0.871
43DAP/42DAP	0.83394	0.572
47DAP/43DAP	1.03724	0.773
52DAP/47DAP	0.95153	0.843
57DAP/52DAP	1.06885	0.969

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.42093	0.012
17DAP/reference	1.42501	0.01
27DAP/reference	1.18068	0.152
39DAP/reference	1.10359	0.423
41DAP/reference	1.44378	0.024
42DAP/reference	1.35596	0.002
43DAP/reference	1.02022	0.928
47DAP/reference	1.41156	0.001
52DAP/reference	1.66056	0.013
57DAP/reference	1.25402	0.344

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.12208	0.455
27DAP/17DAP	2.12852	0.699
39DAP/27DAP	1.11693	0.553
41DAP/39DAP	1.08235	0.774
42DAP/41DAP	0.83499	0.174
43DAP/42DAP	1.01826	1
47DAP/43DAP	1.01587	1
52DAP/47DAP	0.98444	0.925
57DAP/52DAP	1.11581	0.5
57DAP/7DAP	1.26557	0.249

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.91746	0.246
17DAP/reference	0.80871	0.02
27DAP/reference	0.79693	0.01
39DAP/reference	0.808	0.013
41DAP/reference	0.89236	0.153
42DAP/reference	0.766	0.01
43DAP/reference	0.7101	0.011
47DAP/reference	0.94487	0.504
52DAP/reference	0.8603	0.09
57DAP/reference	0.76124	0.006

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.10842	0.55
17DAP/reference	1.49176	0.013
27DAP/reference	1.45083	0.031
39DAP/reference	1.71948	0.013
41DAP/reference	1.70106	0.005
42DAP/reference	1.50019	0.012
43DAP/reference	1.35063	0.116
47DAP/reference	1.37309	0.008
52DAP/reference	1.60121	0.006
57DAP/reference	1.53737	0.01

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.86294	0.135
17DAP/reference	1.06849	0.824
27DAP/reference	0.81945	0.155
39DAP/reference	0.89183	0.222
41DAP/reference	0.87066	0.119
42DAP/reference	0.98458	0.671
43DAP/reference	1.27931	0.505
47DAP/reference	1.28677	0.008
52DAP/reference	0.88588	0.405
57DAP/reference	1.30085	0.298

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.93774	1
26DAP/20DAP	0.92943	1
34DAP/26DAP	1.15312	1
51DAP/34DAP	1.25063	0.271
52DAP/51DAP	0.96597	1
53DAP/52DAP	1.2551	0.138
55DAP/53DAP	1.03677	0.922
57DAP/55DAP	1.15033	0.51
62DAP/57DAP	0.84163	0.681
68DAP/62DAP	0.79367	0.579
68DAP/14DAP	0.78386	1

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.59758	0.029

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	N/A	N/A
Mature Green Tomato/Ripe Tomato	0.91143	0.487
Immature Eggplant/Mature Eggplant	N/A	N/A
Ripe Pepper/Ripe Tomato	N/A	N/A
Mature Eggplant/Ripe Tomato	N/A	N/A

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	N/A	N/A
1-1-2/M82	N/A	N/A
12-2/M82	N/A	N/A
12-4/M82	1.35919	N/A
1-3/M82	N/A	N/A
2-1-1/M82	N/A	N/A
2-1/M82	N/A	N/A
2-6/M82	N/A	N/A
3-2/M82	N/A	N/A
4-1-1/M82	N/A	N/A
4-1/M82	N/A	N/A
4-3-2/M82	N/A	N/A
4-3/M82	N/A	N/A
5-3/M82	N/A	N/A
6-2/M82	N/A	N/A
6-3/M82	N/A	N/A
7-1/M82	N/A	N/A
7-2/M82	N/A	N/A
9-3-2/M82	0.94448	1

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	1.12188	0.365
IL2-6/WTpooled	1.05966	0.584
IL7-5/WTpooled	1.25672	0.792
IL7-3/WTpooled	0.91389	0.31
IL12-4/WTpooled	1.40704	0.695
IL1-4/WTpooled	1.04841	1
WT/WTpooled	1.0136	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	0.7022	0.75

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.94046	1
DC3000/delta hrp 6h	N/A	N/A
DC3000/delta hrp 12h	1.07677	1
DC3000/delta hrp 24h	0.69145	0.037

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	0.60108	0.036
DC3000 delta B/DC3000 delta AB	0.42095	0.02

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

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

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

hybridization	ratio	FDR (corrected p value)
self-self	0.98183	1
Var 0h	1.19975	0.594
Var 12h I row2-row1	0.82788	0.39
Var 12h NI row2-row1	0.8872	0.546
Var 36h I row2-row1	0.91689	0.575
Var 36h NI row2-row1	1.15506	0.482
Var 60h I row2-row1	1.09935	1
Var 60h NI row2-row1	1.12119	0.904
Time course 0hI-0hNI	1.08021	0.662
Time course 12hI-12hNI	0.96773	0.806
Time course 36hI-36hNI	0.86125	0.052
Time course 60hI-60hNI	0.19129	0.005

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)	N/A	N/A
transgenic ySAMdc/azygous control (breaker)	1.44015	0.248
transgenic ySAMdc/azygous control (red)	1.27049	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	N/A	N/A

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.27412	1

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)	1.03976	1
Manapal/WT (red)	1.33281	0.222