Tomato Functional Genomics Database (TFGD)

Expression of 1-1-3.3.15.1

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.95225	0.699
27DAP/17DAP	0.9429	0.892
39DAP/27DAP	1.10707	0.841
41DAP/39DAP	0.95143	0.756
42DAP/41DAP	0.97437	1
43DAP/42DAP	1.01339	0.945
47DAP/43DAP	0.9765	0.835
52DAP/47DAP	0.97119	0.875
57DAP/52DAP	1.18912	0.912

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.84572	0.063
17DAP/reference	0.89871	0.208
27DAP/reference	0.89427	0.194
39DAP/reference	0.92505	0.333
41DAP/reference	0.82339	0.085
42DAP/reference	0.79843	0.003
43DAP/reference	0.89766	0.247
47DAP/reference	0.84061	0.083
52DAP/reference	1.1315	0.149
57DAP/reference	1.26534	0.021

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.94576	0.679
27DAP/17DAP	0.96506	0.887
39DAP/27DAP	1.03769	1
41DAP/39DAP	1.27733	0.214
42DAP/41DAP	0.98172	0.791
43DAP/42DAP	1.03575	0.83
47DAP/43DAP	1.19564	0.485
52DAP/47DAP	1.17265	0.649
57DAP/52DAP	1.82871	0.05
57DAP/7DAP	1.03061	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.07144	1
17DAP/reference	0.76021	0.025
27DAP/reference	0.85754	0.094
39DAP/reference	0.7119	0.012
41DAP/reference	0.69074	0.026
42DAP/reference	0.68431	0.012
43DAP/reference	0.76727	0.037
47DAP/reference	0.98541	0.671
52DAP/reference	0.78543	0.049
57DAP/reference	0.8368	0.019

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.84773	0.17
17DAP/reference	0.86764	0.164
27DAP/reference	0.83651	0.144
39DAP/reference	0.99867	0.661
41DAP/reference	1.01297	1
42DAP/reference	0.97098	0.261
43DAP/reference	1.02792	0.761
47DAP/reference	0.82324	0.026
52DAP/reference	0.9281	0.111
57DAP/reference	0.81012	0.037

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.90333	0.23
17DAP/reference	0.89161	0.249
27DAP/reference	0.85043	0.06
39DAP/reference	0.81155	0.014
41DAP/reference	0.84603	0.119
42DAP/reference	0.95314	0.552
43DAP/reference	1.02801	1
47DAP/reference	0.94501	0.278
52DAP/reference	0.80832	0.177
57DAP/reference	0.95308	0.453

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.1144	0.966
26DAP/20DAP	1.23319	0.727
34DAP/26DAP	0.91577	0.917
51DAP/34DAP	0.71462	0.508
52DAP/51DAP	N/A	N/A
53DAP/52DAP	0.97105	0.844
55DAP/53DAP	0.85557	0.404
57DAP/55DAP	1.01756	1
62DAP/57DAP	1.07162	0.868
68DAP/62DAP	1.04441	0.939
68DAP/14DAP	1.43668	0.065

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.81339	0.186

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	N/A	N/A
Mature Green Tomato/Ripe Tomato	1.03785	0.632
Immature Eggplant/Mature Eggplant	N/A	N/A
Ripe Pepper/Ripe Tomato	1.15305	1
Mature Eggplant/Ripe Tomato	0.27232

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	0.84981
1-3/M82	N/A	N/A
2-1-1/M82	0.89636
2-1/M82	N/A	N/A
2-6/M82	0.77084
3-2/M82	1.22786
4-1-1/M82	N/A	N/A
4-1/M82	N/A	N/A
4-3-2/M82	1.32525
4-3/M82	N/A	N/A
5-3/M82	0.98314
6-2/M82	N/A	N/A
6-3/M82	N/A	N/A
7-1/M82	1.15591
7-2/M82	1.40333
9-3-2/M82	1.0084	1

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	N/A	N/A
IL2-6/WTpooled	1.07716	0.584
IL7-5/WTpooled	N/A	N/A
IL7-3/WTpooled	1.03039	1
IL12-4/WTpooled	1.35445	0.503
IL1-4/WTpooled	0.80795	0.402
WT/WTpooled	0.97377	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	2.02377

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.90845	1
DC3000/delta hrp 6h	0.64916	0.637
DC3000/delta hrp 12h	0.94817	1
DC3000/delta hrp 24h	1.10835	0.567

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	N/A	N/A
Exp 36h	1.06583	1
Exp 60h	1.29532	0.226

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

hybridization	ratio	FDR (corrected p value)
self-self	1.02752	1
Var 0h	1.24042	0.252
Var 12h I row2-row1	1.43123	0.324
Var 12h NI row2-row1	1.00087	1
Var 36h I row2-row1	1.02945	1
Var 36h NI row2-row1	1.06378	1
Var 60h I row2-row1	1.24692	0.347
Var 60h NI row2-row1	0.77933	0.904
Time course 0hI-0hNI	0.85303	0.111
Time course 12hI-12hNI	1.0599	0.786
Time course 36hI-36hNI	1.31456	0.063
Time course 60hI-60hNI	1.5518	0.011

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)	1.0974	0.654
transgenic ySAMdc/azygous control (breaker)	1.10247	0.248
transgenic ySAMdc/azygous control (red)	1.13976	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.96171	0.163

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.06839	1

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.24604	0.105
Manapal/WT (break)	0.79183	0.333
Manapal/WT (red)	0.73196	0.229