Tomato Functional Genomics Database (TFGD)

Expression of 1-1-7.3.10.4

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.00296	0.951
27DAP/17DAP	1.2213	0.785
39DAP/27DAP	0.93488	0.641
41DAP/39DAP	1.29082	0.498
42DAP/41DAP	1.0154	1
43DAP/42DAP	0.93294	0.858
47DAP/43DAP	1.05784	0.715
52DAP/47DAP	1.08427	0.869
57DAP/52DAP	1.05696	0.963

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.92853	0.062
17DAP/reference	1.02167	0.565
27DAP/reference	0.9773	0.61
39DAP/reference	1.03078	0.465
41DAP/reference	0.9217	0.341
42DAP/reference	0.92283	0.046
43DAP/reference	0.94854	0.519
47DAP/reference	0.92688	0.083
52DAP/reference	1.03364	0.8
57DAP/reference	0.99201	0.671

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.95161	0.311
27DAP/17DAP	0.99066	0.943
39DAP/27DAP	0.94103	0.462
41DAP/39DAP	1.04524	0.748
42DAP/41DAP	0.98025	0.776
43DAP/42DAP	1.00903	0.699
47DAP/43DAP	1.01755	0.956
52DAP/47DAP	1.01679	0.945
57DAP/52DAP	0.91439	0.313
57DAP/7DAP	0.98303	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.09973	0.292
17DAP/reference	1.03498	0.477
27DAP/reference	1.0326	0.197
39DAP/reference	1.01828	0.351
41DAP/reference	0.98727	0.357
42DAP/reference	1.01495	0.534
43DAP/reference	1.03515	0.408
47DAP/reference	0.93978	0.383
52DAP/reference	0.95994	0.398
57DAP/reference	0.96905	0.477

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.03474	0.416
17DAP/reference	1.01152	1
27DAP/reference	0.94627	0.381
39DAP/reference	0.91699	0.126
41DAP/reference	0.88784	0.07
42DAP/reference	0.96123	0.392
43DAP/reference	1.01151	0.939
47DAP/reference	1.05412	0.603
52DAP/reference	0.95049	0.239
57DAP/reference	0.99545	0.789

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.97416	0.268
17DAP/reference	0.97462	0.381
27DAP/reference	1.01706	0.721
39DAP/reference	0.99921	0.889
41DAP/reference	0.96736	0.264
42DAP/reference	0.89655	0.059
43DAP/reference	0.99324	0.738
47DAP/reference	0.99009	0.593
52DAP/reference	1.00694	0.965
57DAP/reference	0.81671	0.036

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.05139	0.966
26DAP/20DAP	0.92061	0.317
34DAP/26DAP	0.99447	1
51DAP/34DAP	1.02002	0.883
52DAP/51DAP	1.01541	0.904
53DAP/52DAP	0.97552	0.854
55DAP/53DAP	1.03244	0.994
57DAP/55DAP	0.96398	0.828
62DAP/57DAP	0.99832	0.994
68DAP/62DAP	0.89257	0.7
68DAP/14DAP	1.48995	0.403

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.03722	0.663

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	1.02988	1
Mature Green Tomato/Ripe Tomato	1.17428	0.119
Immature Eggplant/Mature Eggplant	1.17101	0.157
Ripe Pepper/Ripe Tomato	0.52669	0.224
Mature Eggplant/Ripe Tomato	0.68191	0.234

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.02931	1
1-1-2/M82	0.9326	1
12-2/M82	0.94199	0.955
12-4/M82	0.94417	1
1-3/M82	0.95618	1
2-1-1/M82	1.09791	0.689
2-1/M82	0.93639
2-6/M82	0.97425	1
3-2/M82	0.97321	1
4-1-1/M82	1.03039	1
4-1/M82	1.09089	0.334
4-3-2/M82	1.01533	1
4-3/M82	0.98499	1
5-3/M82	1.03623	0.572
6-2/M82	1.18389	1
6-3/M82	1.04915	1
7-1/M82	0.92038	1
7-2/M82	1.00312	1
9-3-2/M82	0.77846	0.355

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	1.43626
IL2-6/WTpooled	N/A	N/A
IL7-5/WTpooled	N/A	N/A
IL7-3/WTpooled	N/A	N/A
IL12-4/WTpooled	0.82996
IL1-4/WTpooled	1.17264	1
WT/WTpooled	N/A	N/A

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	1.03878	1

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.92879	0.084
DC3000/delta hrp 6h	0.89766	0.95
DC3000/delta hrp 12h	1.13626	1
DC3000/delta hrp 24h	1.01276	0.76

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	0.93157	0.171
DC3000 delta B/DC3000 delta AB	0.98899	1

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	0.87339	1
Exp 36h	1.46297	0.489
Exp 60h	1.38947	0.283

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

hybridization	ratio	FDR (corrected p value)
self-self	1.00919	1
Var 0h	0.50399	0.98
Var 12h I row2-row1	1.52021	0.506
Var 12h NI row2-row1	0.94949	0.546
Var 36h I row2-row1	0.96417	1
Var 36h NI row2-row1	1.00173	1
Var 60h I row2-row1	1.34523	1
Var 60h NI row2-row1	1.17067	0.904
Time course 0hI-0hNI	1.04508	0.833
Time course 12hI-12hNI	1.07763	0.55
Time course 36hI-36hNI	1.03221	0.28
Time course 60hI-60hNI	1.06574	0.254

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)	1.00476	0.541
transgenic ySAMdc/azygous control (breaker)	0.97796	1
transgenic ySAMdc/azygous control (red)	1.16483	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.00729	0.525

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.12245	0.239

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.7652	0.172
Manapal/WT (break)	1.01466	1
Manapal/WT (red)	1.3777	0.15