Tomato Functional Genomics Database (TFGD)

Expression of 1-1-5.4.15.10

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.70677	0.131
27DAP/17DAP	0.74617	0.254
39DAP/27DAP	1.0502	0.899
41DAP/39DAP	1.26852	0.569
42DAP/41DAP	1.25004	0.825
43DAP/42DAP	0.95127	0.813
47DAP/43DAP	0.82224	0.455
52DAP/47DAP	1.00714	0.89
57DAP/52DAP	0.91	0.872

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.98928	0.63
17DAP/reference	0.98205	0.567
27DAP/reference	0.98602	0.623
39DAP/reference	0.94299	0.141
41DAP/reference	0.93178	0.267
42DAP/reference	0.99085	0.455
43DAP/reference	1.03329	0.403
47DAP/reference	0.95297	0.065
52DAP/reference	1.04392	0.695
57DAP/reference	1.01261	1

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.83344	0.08
27DAP/17DAP	1.06752	0.836
39DAP/27DAP	1.09365	0.453
41DAP/39DAP	0.88336	0.446
42DAP/41DAP	1.09165	0.526
43DAP/42DAP	1.00942	1
47DAP/43DAP	1.00902	1
52DAP/47DAP	0.96401	0.884
57DAP/52DAP	0.95269	0.628
57DAP/7DAP	0.9912	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.88338	0.108
17DAP/reference	0.89909	0.035
27DAP/reference	0.86352	0.051
39DAP/reference	0.83553	0.011
41DAP/reference	0.84837	0.014
42DAP/reference	0.81378	0.011
43DAP/reference	0.88853	0.028
47DAP/reference	0.8863	0.222
52DAP/reference	0.76716	0.012
57DAP/reference	0.76281	0.026

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.03499	0.456
17DAP/reference	1.0207	0.839
27DAP/reference	0.89608	0.129
39DAP/reference	0.94706	0.189
41DAP/reference	0.91751	0.141
42DAP/reference	0.93139	0.121
43DAP/reference	0.99741	0.814
47DAP/reference	1.09778	0.105
52DAP/reference	1.04335	0.368
57DAP/reference	1.07114	0.2

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.89503	0.063
17DAP/reference	0.96165	0.433
27DAP/reference	0.93403	0.174
39DAP/reference	0.93182	0.179
41DAP/reference	0.84948	0.04
42DAP/reference	0.86637	0.041
43DAP/reference	0.96667	0.416
47DAP/reference	1.04431	0.461
52DAP/reference	0.79696	0.189
57DAP/reference	0.80674	0.034

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.86037	0.997
26DAP/20DAP	1.0343	0.941
34DAP/26DAP	0.94974	0.771
51DAP/34DAP	0.88337	0.305
52DAP/51DAP	1.0836	0.481
53DAP/52DAP	1.05506	0.623
55DAP/53DAP	1.09181	0.653
57DAP/55DAP	0.92258	0.623
62DAP/57DAP	1.0273	0.868
68DAP/62DAP	1.03585	0.991
68DAP/14DAP	0.97361	1

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.10712	0.466

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	N/A	N/A
Mature Green Tomato/Ripe Tomato	3.71414	0.015
Immature Eggplant/Mature Eggplant	0.93999
Ripe Pepper/Ripe Tomato	0.41648
Mature Eggplant/Ripe Tomato	0.74688

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.0397	1
1-1-2/M82	0.9103	1
12-2/M82	1.20745	1
12-4/M82	0.88083	1
1-3/M82	0.84897	0.378
2-1-1/M82	1.19651	0.375
2-1/M82	0.89835
2-6/M82	1.05433	1
3-2/M82	0.86712
4-1-1/M82	0.98948	1
4-1/M82	1.03423
4-3-2/M82	1.16774
4-3/M82	1.00437	1
5-3/M82	0.99009	1
6-2/M82	0.92614
6-3/M82	N/A	N/A
7-1/M82	0.84308
7-2/M82	1.07472	1
9-3-2/M82	0.85738

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	1.11611
IL2-6/WTpooled	1.29526
IL7-5/WTpooled	0.95543	1
IL7-3/WTpooled	1.21769
IL12-4/WTpooled	1.21886	0.695
IL1-4/WTpooled	0.98713	1
WT/WTpooled	0.93245	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	0.88655	0.975

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.0708	0.921
DC3000/delta hrp 6h	1.0814	1
DC3000/delta hrp 12h	1.0375	1
DC3000/delta hrp 24h	0.99007	1

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	0.97315	0.805

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	0.94064	1
Exp 36h	0.86526	0.623
Exp 60h	0.61637	0.259

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

hybridization	ratio	FDR (corrected p value)
self-self	0.99202	1
Var 0h	1.1742	0.594
Var 12h I row2-row1	1.09924	0.222
Var 12h NI row2-row1	1.02554	1
Var 36h I row2-row1	0.85726	0.805
Var 36h NI row2-row1	0.82995	0.522
Var 60h I row2-row1	1.34027	0.562
Var 60h NI row2-row1	1.13739	0.904
Time course 0hI-0hNI	1.09159	0.413
Time course 12hI-12hNI	0.95805	0.624
Time course 36hI-36hNI	0.78418	0.088
Time course 60hI-60hNI	1.26456	0.069

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)	1.04444	0.36
transgenic ySAMdc/azygous control (breaker)	0.77609	0.173
transgenic ySAMdc/azygous control (red)	0.8218	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.00799	0.687

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.85369	0.238

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.07878	0.307
Manapal/WT (break)	1.16533	1
Manapal/WT (red)	1.12029	1