Tomato Functional Genomics Database (TFGD)

Expression of 1-1-2.1.12.6

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.90834	0.558
27DAP/17DAP	1.03687	1
39DAP/27DAP	1.07932	0.845
41DAP/39DAP	1.412	0.212
42DAP/41DAP	2.11954	0.066
43DAP/42DAP	1.69506	0.346
47DAP/43DAP	0.72654	0.17
52DAP/47DAP	0.9071	0.72
57DAP/52DAP	0.92856	0.853

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.20378	0.028
17DAP/reference	1.00849	1
27DAP/reference	0.93678	0.215
39DAP/reference	0.93824	0.437
41DAP/reference	1.14682	0.421
42DAP/reference	1.07309	0.2
43DAP/reference	0.95429	0.429
47DAP/reference	0.94553	0.174
52DAP/reference	0.95561	0.393
57DAP/reference	0.79202	0.021

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.87186	0.415
27DAP/17DAP	0.82838	0.537
39DAP/27DAP	1.2649	0.565
41DAP/39DAP	1.24837	0.735
42DAP/41DAP	1.13847	1
43DAP/42DAP	1.19031	0.554
47DAP/43DAP	1.33084	0.681
52DAP/47DAP	1.23224	0.519
57DAP/52DAP	0.87778	0.252
57DAP/7DAP	0.47339	0.186

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.90284	0.138
17DAP/reference	0.89843	0.011
27DAP/reference	0.85596	0.01
39DAP/reference	0.93186	0.012
41DAP/reference	0.89194	0.029
42DAP/reference	0.89088	0.011
43DAP/reference	0.85489	0.011
47DAP/reference	0.69972	0.168
52DAP/reference	0.78727	0.022
57DAP/reference	0.86751	0.008

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.04487	0.952
17DAP/reference	1.19242	0.072
27DAP/reference	1.20975	0.076
39DAP/reference	0.91725	0.306
41DAP/reference	1.03615	1
42DAP/reference	1.05703	0.543
43DAP/reference	0.97949	0.681
47DAP/reference	1.06184	0.311
52DAP/reference	0.78657	0.04
57DAP/reference	0.81263	0.032

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.04585	0.804
17DAP/reference	1.17694	0.371
27DAP/reference	0.92834	0.206
39DAP/reference	0.93336	0.246
41DAP/reference	0.91932	0.04
42DAP/reference	0.91341	0.287
43DAP/reference	0.92686	0.348
47DAP/reference	0.73623	0.011
52DAP/reference	0.73848	0.069
57DAP/reference	0.68584	0.019

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.89957	0.981
26DAP/20DAP	N/A	N/A
34DAP/26DAP	N/A	N/A
51DAP/34DAP	0.97729
52DAP/51DAP	0.7931	1
53DAP/52DAP	1.02178	0.938
55DAP/53DAP	1.27856	0.074
57DAP/55DAP	1.02622
62DAP/57DAP	1.25382	0.445
68DAP/62DAP	0.69599	0.087
68DAP/14DAP	0.56061	0.375

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.09706

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	2.40419
Mature Green Tomato/Ripe Tomato	0.5514	0.036
Immature Eggplant/Mature Eggplant	1.09874	0.23
Ripe Pepper/Ripe Tomato	N/A	N/A
Mature Eggplant/Ripe Tomato	3.39548	0.26

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.01218	1
1-1-2/M82	1.25962	1
12-2/M82	0.88354	0.955
12-4/M82	1.3039	0.611
1-3/M82	0.63637	0.378
2-1-1/M82	N/A	N/A
2-1/M82	N/A	N/A
2-6/M82	1.18935	0.505
3-2/M82	0.89245
4-1-1/M82	1.12831
4-1/M82	N/A	N/A
4-3-2/M82	0.82265	0.698
4-3/M82	0.99439
5-3/M82	0.99707	1
6-2/M82	N/A	N/A
6-3/M82	1.24348	1
7-1/M82	N/A	N/A
7-2/M82	1.0179
9-3-2/M82	1.29004	1

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	1.17545	1
IL2-6/WTpooled	1.13872	0.441
IL7-5/WTpooled	0.48429
IL7-3/WTpooled	0.73708	1
IL12-4/WTpooled	0.91952	1
IL1-4/WTpooled	0.98441	1
WT/WTpooled	1.14136	0.957

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	N/A	N/A

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.06633	0.875
DC3000/delta hrp 6h	N/A	N/A
DC3000/delta hrp 12h	1.17069	1
DC3000/delta hrp 24h	1.27402	0.37

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	N/A	N/A
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	0.8754	1
Exp 36h	1.76729	0.693
Exp 60h	0.9562	0.855

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

hybridization	ratio	FDR (corrected p value)
self-self	N/A	N/A
Var 0h	0.97399	1
Var 12h I row2-row1	N/A	N/A
Var 12h NI row2-row1	0.94836	0.906
Var 36h I row2-row1	1.1529
Var 36h NI row2-row1	0.95142
Var 60h I row2-row1	N/A	N/A
Var 60h NI row2-row1	0.82991	1
Time course 0hI-0hNI	0.69162
Time course 12hI-12hNI	0.7766
Time course 36hI-36hNI	0.88168	0.132
Time course 60hI-60hNI	3.09263

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)	1.16068	0.326
transgenic ySAMdc/azygous control (breaker)	0.91658	1
transgenic ySAMdc/azygous control (red)	1.00586	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.94758	0.181

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.77088	0.238

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.81918	1
Manapal/WT (break)	N/A	N/A
Manapal/WT (red)	N/A	N/A