Tomato Functional Genomics Database (TFGD)

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Expression of 1-1-3.2.4.11

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.84544	0.395
27DAP/17DAP	1.07826	1
39DAP/27DAP	1.21115	0.804
41DAP/39DAP	1.06104	0.67
42DAP/41DAP	1.41029	0.556
43DAP/42DAP	1.0257	1
47DAP/43DAP	1.17756	0.668
52DAP/47DAP	0.97111	0.903
57DAP/52DAP	0.9553	0.957

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.05151	0.788
17DAP/reference	0.91991	0.18
27DAP/reference	0.89369	0.124
39DAP/reference	1.00125	0.991
41DAP/reference	0.97492	0.667
42DAP/reference	0.98396	0.413
43DAP/reference	1.01545	0.866
47DAP/reference	1.02205	0.937
52DAP/reference	1.14729	0.388
57DAP/reference	1.17691	0.017

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.88595	0.402
27DAP/17DAP	1.09863	0.885
39DAP/27DAP	0.83878	0.111
41DAP/39DAP	0.77104	0.142
42DAP/41DAP	1.05979	0.824
43DAP/42DAP	1.26533	0.23
47DAP/43DAP	1.28508	0.822
52DAP/47DAP	1.00006	0.959
57DAP/52DAP	0.85943	0.308
57DAP/7DAP	1.11546	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.05178	0.732
17DAP/reference	0.97076	0.518
27DAP/reference	1.02201	1
39DAP/reference	1.11601	0.069
41DAP/reference	1.15524	0.215
42DAP/reference	0.94249	0.371
43DAP/reference	0.96569	0.421
47DAP/reference	1.02013	1
52DAP/reference	0.98198	0.523
57DAP/reference	0.98838	0.513

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.94378	0.669
17DAP/reference	0.83595	0.109
27DAP/reference	1.04118	0.888
39DAP/reference	1.07707	0.543
41DAP/reference	1.03472	1
42DAP/reference	1.15366	0.281
43DAP/reference	1.21388	0.466
47DAP/reference	0.92214	0.129
52DAP/reference	1.01285	1
57DAP/reference	0.92938	0.384

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.98481	0.607
17DAP/reference	1.13042	0.221
27DAP/reference	1.20682	0.447
39DAP/reference	0.99501	0.755
41DAP/reference	0.97389	0.682
42DAP/reference	1.29313	0.012
43DAP/reference	1.06284	0.779
47DAP/reference	0.97383	0.452
52DAP/reference	0.85966	0.277
57DAP/reference	1.27664	0.109

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.84184	0.585
26DAP/20DAP	1.06378	N/A
34DAP/26DAP	1.47478	1
51DAP/34DAP	0.68779	0.074
52DAP/51DAP	1.18828	0.783
53DAP/52DAP	1.26806	0.901
55DAP/53DAP	1.33106	0.885
57DAP/55DAP	0.75042	0.168
62DAP/57DAP	1.59322	0.217
68DAP/62DAP	1.38738	0.22
68DAP/14DAP	1.67707	0.108

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	2.81135	0.029

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	2.2321	N/A
Mature Green Tomato/Ripe Tomato	1.28877	0.331
Immature Eggplant/Mature Eggplant	0.79666	0.063
Ripe Pepper/Ripe Tomato	1.36135	1
Mature Eggplant/Ripe Tomato	4.23803	0.268

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	N/A	N/A
1-1-2/M82	1.17558	1
12-2/M82	0.82296	N/A
12-4/M82	0.87483	N/A
1-3/M82	0.74187	N/A
2-1-1/M82	1.32285	0.764
2-1/M82	1.31779	N/A
2-6/M82	0.63189	N/A
3-2/M82	N/A	N/A
4-1-1/M82	N/A	N/A
4-1/M82	1.1755	N/A
4-3-2/M82	N/A	N/A
4-3/M82	N/A	N/A
5-3/M82	1.06661	1
6-2/M82	N/A	N/A
6-3/M82	0.40564	N/A
7-1/M82	1.31976	N/A
7-2/M82	1.09022	N/A
9-3-2/M82	N/A	N/A

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	0.8611	0.247
IL2-6/WTpooled	1.09801	0.441
IL7-5/WTpooled	N/A	N/A
IL7-3/WTpooled	1.16568	0.362
IL12-4/WTpooled	0.997	1
IL1-4/WTpooled	0.94398	0.834
WT/WTpooled	0.91146	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	1.19383	0.699

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.04581	0.894
DC3000/delta hrp 6h	1.0647	1
DC3000/delta hrp 12h	1.0046	1
DC3000/delta hrp 24h	0.96114	0.769

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	1.03757	1
Exp 36h	0.57789	0.374
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	N/A	N/A
Var 0h	N/A	N/A
Var 12h I row2-row1	N/A	N/A
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	N/A	N/A
Var 60h NI row2-row1	N/A	N/A
Time course 0hI-0hNI	N/A	N/A
Time course 12hI-12hNI	N/A	N/A
Time course 36hI-36hNI	N/A	N/A
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)	1.07959	0.36
transgenic ySAMdc/azygous control (breaker)	0.81122	0.142
transgenic ySAMdc/azygous control (red)	1.43643	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.96981	0.105

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.9026	0.238

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.04772	1
Manapal/WT (break)	1.0089	1
Manapal/WT (red)	1.0161	1