Tomato Functional Genomics Database (TFGD)

Expression of 1-1-8.2.19.6

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.83488	0.324
27DAP/17DAP	1.10443	0.859
39DAP/27DAP	1.36312	0.42
41DAP/39DAP	0.92163	0.662
42DAP/41DAP	0.95952	1
43DAP/42DAP	1.11751	1
47DAP/43DAP	0.91039	0.634
52DAP/47DAP	0.85066	0.587
57DAP/52DAP	0.95345	0.956

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.6702	0.024
17DAP/reference	0.78104	0.024
27DAP/reference	0.84983	0.101
39DAP/reference	0.77041	0.021
41DAP/reference	0.73258	0.039
42DAP/reference	0.96199	0.278
43DAP/reference	0.82448	0.067
47DAP/reference	1.05234	0.728
52DAP/reference	1.17398	0.114
57DAP/reference	1.16724	0.147

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.90249	0.299
27DAP/17DAP	1.15915	0.429
39DAP/27DAP	1.05999	0.832
41DAP/39DAP	0.95966	0.893
42DAP/41DAP	1.05312	0.763
43DAP/42DAP	1.07429	0.554
47DAP/43DAP	1.0972	0.414
52DAP/47DAP	1.12646	0.57
57DAP/52DAP	0.96856	0.716
57DAP/7DAP	1.05795	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.92129	0.445
17DAP/reference	1.12285	0.688
27DAP/reference	1.24199	0.107
39DAP/reference	1.24125	0.198
41DAP/reference	1.2356	0.363
42DAP/reference	1.0244	0.751
43DAP/reference	0.93511	0.23
47DAP/reference	1.12983	0.45
52DAP/reference	1.07104	0.684
57DAP/reference	1.11615	0.851

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.77749	0.015
17DAP/reference	0.90775	0.195
27DAP/reference	0.98513	0.619
39DAP/reference	1.03882	1
41DAP/reference	0.99347	0.57
42DAP/reference	1.02451	1
43DAP/reference	0.84231	0.186
47DAP/reference	0.90779	0.129
52DAP/reference	1.1157	0.747
57DAP/reference	0.88011	0.194

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.09109	0.481
17DAP/reference	0.75214	0.078
27DAP/reference	0.92467	0.337
39DAP/reference	0.97998	0.755
41DAP/reference	1.37911	0.125
42DAP/reference	1.44709	0.089
43DAP/reference	1.35681	0.029
47DAP/reference	0.98523	0.558
52DAP/reference	0.99263	0.838
57DAP/reference	1.49373	0.022

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.04402	0.966
26DAP/20DAP	1.03569	0.924
34DAP/26DAP	1.05525	0.819
51DAP/34DAP	1.11128	0.293
52DAP/51DAP	1.01641	0.86
53DAP/52DAP	1.07202	0.797
55DAP/53DAP	0.92337	0.604
57DAP/55DAP	0.91262	0.612
62DAP/57DAP	1.06901	0.833
68DAP/62DAP	1.9224	0.375
68DAP/14DAP	2.02268	0.179

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.19038	0.131

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	1.00594	0.908
Mature Green Tomato/Ripe Tomato	1.01615	0.898
Immature Eggplant/Mature Eggplant	1.0797	0.659
Ripe Pepper/Ripe Tomato	1.22107	1
Mature Eggplant/Ripe Tomato	1.35371	1

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.13612
1-1-2/M82	1.0425	1
12-2/M82	0.99424	1
12-4/M82	1.05308	1
1-3/M82	1.78238
2-1-1/M82	1.09116	1
2-1/M82	0.93702
2-6/M82	1.17849
3-2/M82	N/A	N/A
4-1-1/M82	N/A	N/A
4-1/M82	1.3501	0.853
4-3-2/M82	1.01483	1
4-3/M82	1.12852	1
5-3/M82	0.93299	1
6-2/M82	0.94095	1
6-3/M82	1.06355	1
7-1/M82	N/A	N/A
7-2/M82	0.8259
9-3-2/M82	0.99191	1

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	0.96605	1
IL2-6/WTpooled	0.76586	0.358
IL7-5/WTpooled	N/A	N/A
IL7-3/WTpooled	1.27484	1
IL12-4/WTpooled	1.30674	0.367
IL1-4/WTpooled	1.11385
WT/WTpooled	1.09109	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	1.10469	0.853

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.05363	0.921
DC3000/delta hrp 6h	0.81365
DC3000/delta hrp 12h	0.69834	1
DC3000/delta hrp 24h	0.93223	0.338

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	0.89507	0.365
DC3000 delta B/DC3000 delta AB	0.88982	0.236

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	1.01794	1
Exp 36h	1.1615	1
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	0.95767	1
Var 0h	0.9561	1
Var 12h I row2-row1	0.93016	0.514
Var 12h NI row2-row1	1.04166	1
Var 36h I row2-row1	1.0263	1
Var 36h NI row2-row1	0.94896	0.743
Var 60h I row2-row1	0.75425	0.439
Var 60h NI row2-row1	0.96534	1
Time course 0hI-0hNI	1.11951	0.603
Time course 12hI-12hNI	1.06616	0.49
Time course 36hI-36hNI	1.28536	0.014
Time course 60hI-60hNI	1.39914	0.009

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)	1.19662	0.294
transgenic ySAMdc/azygous control (breaker)	0.72912	0.173
transgenic ySAMdc/azygous control (red)	0.89066	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.58069	0.018

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.68322	0.238

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.69685	1
Manapal/WT (break)	N/A	N/A
Manapal/WT (red)	0.86713	0.274