Tomato Functional Genomics Database (TFGD)

Expression of 1-1-4.4.8.12

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.79095	0.272
27DAP/17DAP	1.04041	1
39DAP/27DAP	1.27337	0.588
41DAP/39DAP	0.86878	0.427
42DAP/41DAP	1.03676	0.986
43DAP/42DAP	1.07243	1
47DAP/43DAP	0.78975	0.334
52DAP/47DAP	1.21267	0.731
57DAP/52DAP	1.27112	0.912

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.00224	1
17DAP/reference	1.0566	0.653
27DAP/reference	1.07677	0.232
39DAP/reference	0.97461	0.651
41DAP/reference	1.00653	1
42DAP/reference	0.83823	0.001
43DAP/reference	1.06395	0.425
47DAP/reference	0.92337	0.137
52DAP/reference	1.03716	0.576
57DAP/reference	1.11934	0.073

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.02382	0.975
27DAP/17DAP	0.92484	0.724
39DAP/27DAP	1.36208	0.267
41DAP/39DAP	1.01277	0.921
42DAP/41DAP	0.94982	0.625
43DAP/42DAP	0.93655	0.447
47DAP/43DAP	1.05292	0.735
52DAP/47DAP	1.39823	0.296
57DAP/52DAP	1.61536	0.03
57DAP/7DAP	1.41655	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.35191	0.047
17DAP/reference	1.4414	0.006
27DAP/reference	1.37958	0.012
39DAP/reference	1.40939	0.017
41DAP/reference	1.40351	0.014
42DAP/reference	1.27027	0.174
43DAP/reference	1.43289	0.041
47DAP/reference	1.24794	0.093
52DAP/reference	1.05748	0.247
57DAP/reference	1.18215	0.183

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.84748	0.038
17DAP/reference	0.91977	0.113
27DAP/reference	1.06957	0.715
39DAP/reference	1.04526	0.543
41DAP/reference	1.12606	0.301
42DAP/reference	0.94197	0.237
43DAP/reference	1.02191	1
47DAP/reference	0.91986	0.184
52DAP/reference	0.92205	0.171
57DAP/reference	1.00187	0.68

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.14451	0.098
17DAP/reference	1.02051	0.912
27DAP/reference	1.0898	0.198
39DAP/reference	1.07454	0.451
41DAP/reference	1.15115	0.181
42DAP/reference	1.1493	0.459
43DAP/reference	1.06852	0.646
47DAP/reference	0.98478	0.574
52DAP/reference	1.17935	0.22
57DAP/reference	1.07235	0.57

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.89369	1
26DAP/20DAP	1.54453	0.099
34DAP/26DAP	0.96879	0.927
51DAP/34DAP	1.23635	0.458
52DAP/51DAP	0.91806	1
53DAP/52DAP	1.10838	0.783
55DAP/53DAP	1.00876	1
57DAP/55DAP	1.01216	0.902
62DAP/57DAP	1.15373	0.723
68DAP/62DAP	0.89682	0.314
68DAP/14DAP	0.93228	1

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.85996	0.092

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	N/A	N/A
Mature Green Tomato/Ripe Tomato	0.73978	0.107
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	N/A	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	1.24762
4-1-1/M82	N/A	N/A
4-1/M82	N/A	N/A
4-3-2/M82	1.657
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	1.15812
7-2/M82	N/A	N/A
9-3-2/M82	1.1889	1

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	1.06403	0.277
IL2-6/WTpooled	1.07763	0.427
IL7-5/WTpooled	0.7108
IL7-3/WTpooled	1.18086	1
IL12-4/WTpooled	0.79182	0.71
IL1-4/WTpooled	1.00521	1
WT/WTpooled	0.9726	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	1.22248	0.699

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.94121	1
DC3000/delta hrp 6h	0.97296
DC3000/delta hrp 12h	0.84754	1
DC3000/delta hrp 24h	1.08627	0.71

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.04917	0.055
DC3000 delta B/DC3000 delta AB	1.24706	0.19

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	0.80413	0.328
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	1.00143	1
Var 0h	1.10757	1
Var 12h I row2-row1	1.11516	0.406
Var 12h NI row2-row1	1.01795	1
Var 36h I row2-row1	1.1374	0.742
Var 36h NI row2-row1	1.14393	1
Var 60h I row2-row1	0.92024	0.293
Var 60h NI row2-row1	0.98243	1
Time course 0hI-0hNI	0.88625	0.1
Time course 12hI-12hNI	1.19337	0.04
Time course 36hI-36hNI	1.39088	0.006
Time course 60hI-60hNI	1.62927	0.008

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)	1.43666	0.321
transgenic ySAMdc/azygous control (breaker)	1.51592	0.248
transgenic ySAMdc/azygous control (red)	0.93302	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.98632	0.588

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.99269	1

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.90924	1
Manapal/WT (break)	1.26092	0.381
Manapal/WT (red)	0.92964	0.607