Tomato Functional Genomics Database (TFGD)

Expression of 1-1-8.1.9.2

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.97019	0.752
27DAP/17DAP	1.02687	0.92
39DAP/27DAP	0.79977	0.271
41DAP/39DAP	1.54658	0.276
42DAP/41DAP	1.12341	0.825
43DAP/42DAP	1.04566	1
47DAP/43DAP	1.01918	0.949
52DAP/47DAP	1.20782	0.635
57DAP/52DAP	0.78811	0.673

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.05472	0.735
17DAP/reference	0.9964	0.957
27DAP/reference	1.02767	0.498
39DAP/reference	1.10123	0.023
41DAP/reference	1.09844	0.265
42DAP/reference	0.96392	0.139
43DAP/reference	1.00071	0.924
47DAP/reference	0.91858	0.116
52DAP/reference	0.92965	0.35
57DAP/reference	0.88309	0.124

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.10949	0.525
27DAP/17DAP	1.05944	1
39DAP/27DAP	1.09509	0.465
41DAP/39DAP	1.08898	0.921
42DAP/41DAP	1.05425	0.947
43DAP/42DAP	1.09563	0.413
47DAP/43DAP	1.05114	0.822
52DAP/47DAP	1.00572	0.987
57DAP/52DAP	1.05171	0.783
57DAP/7DAP	1.07794	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.98224	0.495
17DAP/reference	0.95675	0.192
27DAP/reference	0.91879	0.051
39DAP/reference	0.93236	0.023
41DAP/reference	0.86078	0.042
42DAP/reference	0.75914	0.01
43DAP/reference	0.91813	0.115
47DAP/reference	0.88501	0.101
52DAP/reference	0.87536	0.027
57DAP/reference	0.88083	0.034

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.11249	0.545
17DAP/reference	0.98824	0.659
27DAP/reference	0.86935	0.144
39DAP/reference	0.94824	0.289
41DAP/reference	0.82714	0.115
42DAP/reference	0.87268	0.108
43DAP/reference	1.11496	0.164
47DAP/reference	0.96659	0.434
52DAP/reference	0.8968	0.111
57DAP/reference	0.99147	0.72

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.10253	0.616
17DAP/reference	1.03701	0.641
27DAP/reference	0.93229	0.165
39DAP/reference	0.96542	0.133
41DAP/reference	0.88005	0.037
42DAP/reference	0.90373	0.172
43DAP/reference	0.86736	0.137
47DAP/reference	0.96343	0.465
52DAP/reference	1.05601	0.735
57DAP/reference	0.85267	0.141

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.97579	1
26DAP/20DAP	1.008	1
34DAP/26DAP	1.302	0.542
51DAP/34DAP	0.95663	0.727
52DAP/51DAP	1.10162	0.446
53DAP/52DAP	1.07165	0.688
55DAP/53DAP	1.23594	0.28
57DAP/55DAP	0.98856	0.88
62DAP/57DAP	1.21293	0.569
68DAP/62DAP	0.77717	0.314
68DAP/14DAP	1.13517	0.889

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.93768	0.211

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	1.00644	1
Mature Green Tomato/Ripe Tomato	0.9937	0.835
Immature Eggplant/Mature Eggplant	3.6512	0.05
Ripe Pepper/Ripe Tomato	0.74489	1
Mature Eggplant/Ripe Tomato	0.60838	1

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	0.98849	0.961
1-1-2/M82	0.95607	1
12-2/M82	0.94957	0.955
12-4/M82	0.99344	1
1-3/M82	1.23102	0.26
2-1-1/M82	0.88553	0.784
2-1/M82	0.8167	0.345
2-6/M82	1.08334	0.505
3-2/M82	1.00928	1
4-1-1/M82	1.30928	0.876
4-1/M82	0.83263	0.737
4-3-2/M82	1.03756	1
4-3/M82	1.00394	1
5-3/M82	0.89704	1
6-2/M82	0.96837	1
6-3/M82	0.9727	1
7-1/M82	0.91009	0.803
7-2/M82	1.01699	1
9-3-2/M82	0.93938	1

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	1.05207	0.277
IL2-6/WTpooled	1.05698	1
IL7-5/WTpooled	0.68802	1
IL7-3/WTpooled	N/A	N/A
IL12-4/WTpooled	1.67376	0.557
IL1-4/WTpooled	0.66034	0.444
WT/WTpooled	1.16202	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	1.132	0.853

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.087	0.921
DC3000/delta hrp 6h	1.18653	0.857
DC3000/delta hrp 12h	0.92544	1
DC3000/delta hrp 24h	0.74065	0.035

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	0.93378	0.413
DC3000 delta B/DC3000 delta AB	1.08336	0.42

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	1.05092	1
Exp 36h	1.03385	1
Exp 60h	0.79588	0.586

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

hybridization	ratio	FDR (corrected p value)
self-self	0.96987	1
Var 0h	0.49772	0.933
Var 12h I row2-row1	0.85592	0.338
Var 12h NI row2-row1	1.04899	1
Var 36h I row2-row1	1.33294	0.41
Var 36h NI row2-row1	1.36033	0.276
Var 60h I row2-row1	0.9635	0.582
Var 60h NI row2-row1	1.16546	1
Time course 0hI-0hNI	0.92418	0.572
Time course 12hI-12hNI	0.98312	0.909
Time course 36hI-36hNI	1.00061	0.68
Time course 60hI-60hNI	0.5032	0.015

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)	1.32672	0.254
transgenic ySAMdc/azygous control (breaker)	1.11187	1
transgenic ySAMdc/azygous control (red)	1.0447	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.02518	0.495

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.41518	0.277

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	8.221	0.083
Manapal/WT (break)	1.46511	0.381
Manapal/WT (red)	1.23386	1