Tomato Functional Genomics Database (TFGD)

Expression of 1-1-4.2.16.10

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.04967	0.786
27DAP/17DAP	1.12504	0.842
39DAP/27DAP	0.64251	0.319
41DAP/39DAP	1.48747	0.273
42DAP/41DAP	1.12894	0.886
43DAP/42DAP	1.268	0.714
47DAP/43DAP	1.13256	0.513
52DAP/47DAP	1.06686	0.98
57DAP/52DAP	0.98588	0.976

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.96626	0.422
17DAP/reference	1.01934	0.492
27DAP/reference	0.97021	0.457
39DAP/reference	0.99863	1
41DAP/reference	0.94461	0.434
42DAP/reference	0.88621	0.008
43DAP/reference	0.98094	0.611
47DAP/reference	0.92773	0.03
52DAP/reference	0.94296	0.3
57DAP/reference	0.96878	0.415

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.95316	0.56
27DAP/17DAP	1.00114	1
39DAP/27DAP	1.06186	0.56
41DAP/39DAP	1.12304	0.705
42DAP/41DAP	0.95622	0.695
43DAP/42DAP	1.10345	0.038
47DAP/43DAP	1.02245	0.906
52DAP/47DAP	0.97864	0.868
57DAP/52DAP	1.02004	0.877
57DAP/7DAP	1.01503	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.93171
17DAP/reference	0.98047	0.338
27DAP/reference	0.98836	0.494
39DAP/reference	1.01742	0.175
41DAP/reference	0.99519	0.646
42DAP/reference	0.94621	0.338
43DAP/reference	0.99628	0.727
47DAP/reference	0.95273	0.383
52DAP/reference	1.04367	0.491
57DAP/reference	1.02833	0.438

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.94913	0.374
17DAP/reference	0.89728	0.015
27DAP/reference	0.92883	0.051
39DAP/reference	0.91623	0.178
41DAP/reference	0.92115	0.105
42DAP/reference	0.92804	0.135
43DAP/reference	0.96898	0.404
47DAP/reference	0.90132	0.035
52DAP/reference	1.02031	0.629
57DAP/reference	1.06018	0.314

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.98411	0.362
17DAP/reference	0.93621	0.328
27DAP/reference	1.01351	0.721
39DAP/reference	0.99571	0.819
41DAP/reference	1.0057	0.984
42DAP/reference	0.93812	0.361
43DAP/reference	0.95882	0.398
47DAP/reference	0.95971	0.259
52DAP/reference	0.97815	0.69
57DAP/reference	0.87053	0.057

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.93388	1
26DAP/20DAP	0.96832	1
34DAP/26DAP	1.07048	0.819
51DAP/34DAP	0.97174	0.688
52DAP/51DAP	1.01178	0.86
53DAP/52DAP	0.98351
55DAP/53DAP	1.12929	0.764
57DAP/55DAP	1.25394	0.841
62DAP/57DAP	1.01537	1
68DAP/62DAP	0.79731	0.152
68DAP/14DAP	0.90219	0.375

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.89817	0.115

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	N/A	N/A
Mature Green Tomato/Ripe Tomato	1.05695	1
Immature Eggplant/Mature Eggplant	N/A	N/A
Ripe Pepper/Ripe Tomato	0.68117	1
Mature Eggplant/Ripe Tomato	0.57686

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	0.99156	0.961
1-1-2/M82	0.84435	0.804
12-2/M82	0.9897
12-4/M82	1.10634	1
1-3/M82	0.87172	0.501
2-1-1/M82	N/A	N/A
2-1/M82	N/A	N/A
2-6/M82	1.02914
3-2/M82	N/A	N/A
4-1-1/M82	0.87345
4-1/M82	1.0102
4-3-2/M82	0.73438	0.698
4-3/M82	0.87142
5-3/M82	0.98849	1
6-2/M82	N/A	N/A
6-3/M82	N/A	N/A
7-1/M82	N/A	N/A
7-2/M82	0.80402
9-3-2/M82	0.85952	1

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	N/A	N/A
IL12-4/WTpooled	N/A	N/A
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	1.08501	0.699

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.95532	1
DC3000/delta hrp 6h	1.06303	1
DC3000/delta hrp 12h	1.04595	1
DC3000/delta hrp 24h	0.96858	0.818

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.07505	0.05
DC3000 delta B/DC3000 delta AB	1.0564	0.516

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	0.79828	0.328
Exp 36h	0.77759	0.661
Exp 60h	0.886	0.664

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

hybridization	ratio	FDR (corrected p value)
self-self	0.99189	1
Var 0h	1.0444	1
Var 12h I row2-row1	1.17338	0.222
Var 12h NI row2-row1	0.95374	0.713
Var 36h I row2-row1	0.99732	1
Var 36h NI row2-row1	1.10881	0.482
Var 60h I row2-row1	1.39167	0.562
Var 60h NI row2-row1	1.0616	0.904
Time course 0hI-0hNI	1.03141	0.852
Time course 12hI-12hNI	1.00038	1
Time course 36hI-36hNI	0.9652	0.312
Time course 60hI-60hNI	1.09252	0.302

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)	1.05063	0.267
transgenic ySAMdc/azygous control (breaker)	0.89838	0.49
transgenic ySAMdc/azygous control (red)	1.07597	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.9894	0.431

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.28854	0.277

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.29874	0.307
Manapal/WT (break)	1.02507	1
Manapal/WT (red)	0.90551	0.242