Tomato Functional Genomics Database (TFGD)

Expression of 1-1-1.2.1.12

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.16098	0.975
27DAP/17DAP	1.63919	0.588
39DAP/27DAP	1.2395	0.787
41DAP/39DAP	0.55867	0.189
42DAP/41DAP	1.08517	1
43DAP/42DAP	0.95545	0.909
47DAP/43DAP	1.0965	0.92
52DAP/47DAP	1.16591	0.832
57DAP/52DAP	0.69035	0.431

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.99064	0.707
17DAP/reference	0.87637	0.104
27DAP/reference	0.96335	0.484
39DAP/reference	0.89897	0.159
41DAP/reference	0.79367	0.013
42DAP/reference	0.98649	0.44
43DAP/reference	0.91942	0.129
47DAP/reference	1.01764	1
52DAP/reference	1.05541	0.548
57DAP/reference	0.98782	0.639

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	2.40366	0.515
27DAP/17DAP	1.40856	0.426
39DAP/27DAP	0.85992	0.536
41DAP/39DAP	1.00844	0.968
42DAP/41DAP	0.53602	0.019
43DAP/42DAP	1.13611	1
47DAP/43DAP	1.22099	0.951
52DAP/47DAP	1.85554	0.274
57DAP/52DAP	2.47562	0.284
57DAP/7DAP	4.05011	0.365

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.86861	0.108
17DAP/reference	1.25881	0.064
27DAP/reference	0.97982	0.494
39DAP/reference	1.00845	0.745
41DAP/reference	0.83157	0.107
42DAP/reference	0.90396	0.355
43DAP/reference	0.96149	0.368
47DAP/reference	0.94063	0.504
52DAP/reference	0.92173	0.137
57DAP/reference	0.91008	0.176

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.10472	0.577
17DAP/reference	0.94751	0.357
27DAP/reference	1.06429	0.552
39DAP/reference	1.16463	0.188
41DAP/reference	1.1086	0.45
42DAP/reference	1.048	0.934
43DAP/reference	1.04172	0.986
47DAP/reference	0.92102	0.107
52DAP/reference	1.07935	0.279
57DAP/reference	0.89667	0.092

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.38277	0.244
17DAP/reference	1.14327	0.602
27DAP/reference	0.97328	0.691
39DAP/reference	1.18753	0.528
41DAP/reference	1.16573	0.067
42DAP/reference	1.12765	0.114
43DAP/reference	1.1012	0.572
47DAP/reference	0.96113	0.434
52DAP/reference	0.92285	0.424
57DAP/reference	1.23792	0.071

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.61924	0.966
26DAP/20DAP	1.17159	0.477
34DAP/26DAP	1.29696	1
51DAP/34DAP	1.39627
52DAP/51DAP	1.32405
53DAP/52DAP	1.44849	0.334
55DAP/53DAP	1.09363	1
57DAP/55DAP	0.97913
62DAP/57DAP	1.00582	1
68DAP/62DAP	3.14161	0.162
68DAP/14DAP	1.10142	0.936

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	4.38791	0.591

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	1.37784	0.417
Mature Green Tomato/Ripe Tomato	N/A	N/A
Immature Eggplant/Mature Eggplant	0.80777	0.176
Ripe Pepper/Ripe Tomato	N/A	N/A
Mature Eggplant/Ripe Tomato	4.29469

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	N/A	N/A
4-1-1/M82	N/A	N/A
4-1/M82	N/A	N/A
4-3-2/M82	N/A	N/A
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	N/A	N/A
7-2/M82	N/A	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	0.75894
IL2-6/WTpooled	0.70371
IL7-5/WTpooled	N/A	N/A
IL7-3/WTpooled	N/A	N/A
IL12-4/WTpooled	0.64434	0.71
IL1-4/WTpooled	N/A	N/A
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	0.80303	0.166

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.93438	1
DC3000/delta hrp 6h	0.94311	0.95
DC3000/delta hrp 12h	1.05203	1
DC3000/delta hrp 24h	0.4963	0.034

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	0.37023
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	0.90802	1
Exp 36h	0.87568	0.699
Exp 60h	0.69004	0.253

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

hybridization	ratio	FDR (corrected p value)
self-self	0.98016
Var 0h	0.83837	0.933
Var 12h I row2-row1	1.28455
Var 12h NI row2-row1	0.80012	1
Var 36h I row2-row1	0.85251	0.285
Var 36h NI row2-row1	1.31745	0.246
Var 60h I row2-row1	1.00131
Var 60h NI row2-row1	1.00187	0.904
Time course 0hI-0hNI	1.19745	0.799
Time course 12hI-12hNI	0.80414	0.084
Time course 36hI-36hNI	0.66752	0.023
Time course 60hI-60hNI	0.23006	0.006

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)	0.98534	0.722
transgenic ySAMdc/azygous control (breaker)	1.55037	0.248
transgenic ySAMdc/azygous control (red)	1.17867	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.06738	0.05

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.25941	0.277

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.90745	1
Manapal/WT (break)	1.15934	0.381
Manapal/WT (red)	1.14288	0.222