Tomato Functional Genomics Database (TFGD)

Expression of 1-1-7.2.13.1

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.83167	0.29
27DAP/17DAP	1.14026	0.872
39DAP/27DAP	0.97527	0.719
41DAP/39DAP	1.07934	0.806
42DAP/41DAP	1.12826	0.871
43DAP/42DAP	1.25309	0.831
47DAP/43DAP	1.99807	0.355
52DAP/47DAP	1.10864	0.758
57DAP/52DAP	1.09203	0.996

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.99441	0.679
17DAP/reference	1.04778	0.342
27DAP/reference	1.01214	1
39DAP/reference	1.0848	0.557
41DAP/reference	1.18652	0.079
42DAP/reference	0.90915	0.069
43DAP/reference	0.99796	0.861
47DAP/reference	0.90601	0.021
52DAP/reference	0.78104	0.064
57DAP/reference	0.87092	0.065

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.96674	0.679
27DAP/17DAP	1.0533	0.842
39DAP/27DAP	1.27199	0.19
41DAP/39DAP	0.97696	0.986
42DAP/41DAP	1.00626	0.902
43DAP/42DAP	1.13693	0.273
47DAP/43DAP	0.97578	0.846
52DAP/47DAP	0.94859	0.834
57DAP/52DAP	0.90381	0.225
57DAP/7DAP	1.0904	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.0051	0.682
17DAP/reference	1.14188	0.023
27DAP/reference	1.05406	0.804
39DAP/reference	1.16776	0.222
41DAP/reference	1.1018	0.524
42DAP/reference	1.14056	0.233
43DAP/reference	1.10879	0.148
47DAP/reference	1.07183	1
52DAP/reference	0.99858	0.74
57DAP/reference	1.1018	0.382

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.16172	0.612
17DAP/reference	1.01037	0.805
27DAP/reference	0.98411	0.619
39DAP/reference	0.95396	0.442
41DAP/reference	1.05882	1
42DAP/reference	0.89959	0.189
43DAP/reference	1.02439	0.774
47DAP/reference	0.98316	0.543
52DAP/reference	0.88017	0.28
57DAP/reference	1.24249	0.116

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.04856	1
17DAP/reference	1.0183	0.977
27DAP/reference	1.19034	0.07
39DAP/reference	1.25717	0.104
41DAP/reference	1.08082	0.57
42DAP/reference	1.10885	0.45
43DAP/reference	0.84115	0.256
47DAP/reference	0.98984	0.626
52DAP/reference	0.82563	0.385
57DAP/reference	1.01238	0.593

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.15467	0.966
26DAP/20DAP	0.89769	0.512
34DAP/26DAP	1.07192	0.819
51DAP/34DAP	1.01401	0.936
52DAP/51DAP	1.0044	1
53DAP/52DAP	1.16743	0.23
55DAP/53DAP	1.03617	0.948
57DAP/55DAP	1.17142	0.826
62DAP/57DAP	1.09759	0.868
68DAP/62DAP	1.1382	0.977
68DAP/14DAP	1.19257

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.8419	0.079

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	2.1074
Mature Green Tomato/Ripe Tomato	0.85674
Immature Eggplant/Mature Eggplant	1.33439
Ripe Pepper/Ripe Tomato	0.36962	0.293
Mature Eggplant/Ripe Tomato	0.7663	0.234

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	0.89197	0.944
1-1-2/M82	0.90374	1
12-2/M82	0.9636	0.955
12-4/M82	0.95661	1
1-3/M82	0.88611	0.501
2-1-1/M82	0.78345	0.465
2-1/M82	1.09282
2-6/M82	1.03977	1
3-2/M82	0.96007
4-1-1/M82	1.13647	1
4-1/M82	0.96341
4-3-2/M82	0.70397	0.487
4-3/M82	0.85456	0.72
5-3/M82	1.1529	0.572
6-2/M82	0.67972	0.481
6-3/M82	0.96638	1
7-1/M82	0.68336
7-2/M82	0.90228	0.796
9-3-2/M82	0.86631

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	N/A	N/A
IL2-6/WTpooled	N/A	N/A
IL7-5/WTpooled	N/A	N/A
IL7-3/WTpooled	0.94971
IL12-4/WTpooled	N/A	N/A
IL1-4/WTpooled	1.79004	1
WT/WTpooled	1.01406	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	0.90271	0.75

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.05936	0.921
DC3000/delta hrp 6h	0.88535	0.95
DC3000/delta hrp 12h	1.01257	1
DC3000/delta hrp 24h	1.05954	0.595

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.27076	0.042
DC3000 delta B/DC3000 delta AB	1.10959	0.437

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	N/A	N/A
Exp 36h	0.99539	1
Exp 60h	1.09934	1

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

hybridization	ratio	FDR (corrected p value)
self-self	1.08933	1
Var 0h	0.73936	0.933
Var 12h I row2-row1	0.97035	0.948
Var 12h NI row2-row1	0.8368	0.713
Var 36h I row2-row1	0.99809	1
Var 36h NI row2-row1	0.81554	0.421
Var 60h I row2-row1	1.05233
Var 60h NI row2-row1	1.10543	0.904
Time course 0hI-0hNI	1.01371	1
Time course 12hI-12hNI	1.02675	0.854
Time course 36hI-36hNI	1.26439	0.011
Time course 60hI-60hNI	1.45109	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)	1.05674	0.654
transgenic ySAMdc/azygous control (breaker)	1.00671	1
transgenic ySAMdc/azygous control (red)	0.94682	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.97876	0.471

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.05972	1

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	N/A	N/A
Manapal/WT (break)	0.86702	1
Manapal/WT (red)	0.81998	0.36