Tomato Functional Genomics Database (TFGD)

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Expression of 1-1-8.2.18.6

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.78454	0.187
27DAP/17DAP	1.26	0.877
39DAP/27DAP	1.12768	0.974
41DAP/39DAP	0.99186	0.887
42DAP/41DAP	1.11312	1
43DAP/42DAP	0.80537	0.583
47DAP/43DAP	1.40403	0.463
52DAP/47DAP	0.68549	0.325
57DAP/52DAP	1.23967	0.883

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.00776	1
17DAP/reference	1.09041	0.161
27DAP/reference	1.06755	0.357
39DAP/reference	1.0136	0.747
41DAP/reference	1.22725	0.014
42DAP/reference	0.95647	0.085
43DAP/reference	0.9826	0.691
47DAP/reference	0.9805	0.392
52DAP/reference	0.93595	0.3
57DAP/reference	0.84407	0.018

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.02651	1
27DAP/17DAP	0.99204	0.943
39DAP/27DAP	1.08679	0.646
41DAP/39DAP	0.88929	0.164
42DAP/41DAP	1.2456	0.343
43DAP/42DAP	0.89074	0.336
47DAP/43DAP	1.11305	0.245
52DAP/47DAP	1.00676	0.975
57DAP/52DAP	1.25102	0.272
57DAP/7DAP	1.23627	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.90864	0.246
17DAP/reference	0.891	0.031
27DAP/reference	0.99802	0.698
39DAP/reference	0.89239	0.23
41DAP/reference	0.87435	0.184
42DAP/reference	0.76907	0.077
43DAP/reference	0.90829	0.183
47DAP/reference	0.93094	0.383
52DAP/reference	0.85449	0.163
57DAP/reference	0.80839	0.039

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.03277	0.823
17DAP/reference	0.97099	0.487
27DAP/reference	1.01856	0.735
39DAP/reference	0.89915	0.173
41DAP/reference	0.9768	0.412
42DAP/reference	0.85306	0.027
43DAP/reference	1.1459	0.424
47DAP/reference	0.9498	0.178
52DAP/reference	1.03417	0.667
57DAP/reference	1.18006	0.221

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.03055	0.984
17DAP/reference	0.96766	0.528
27DAP/reference	0.86012	0.047
39DAP/reference	0.94422	0.36
41DAP/reference	0.81281	0.024
42DAP/reference	0.83095	0.059
43DAP/reference	0.81463	0.081
47DAP/reference	0.98336	0.558
52DAP/reference	1.43322	0.714
57DAP/reference	0.66482	0.016

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.15656	0.735
26DAP/20DAP	1.46157	0.143
34DAP/26DAP	0.9881	0.988
51DAP/34DAP	1.08775	0.719
52DAP/51DAP	1.01391	1
53DAP/52DAP	1.04411	0.901
55DAP/53DAP	1.41614	0.741
57DAP/55DAP	0.84521	0.386
62DAP/57DAP	0.88007	0.466
68DAP/62DAP	1.24501	0.455
68DAP/14DAP	1.24943	0.87

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.41149	0.072

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	1.09109	0.666
Mature Green Tomato/Ripe Tomato	0.91903	0.487
Immature Eggplant/Mature Eggplant	2.78706	0.05
Ripe Pepper/Ripe Tomato	0.93053	0.293
Mature Eggplant/Ripe Tomato	0.97787	1

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	0.89835	0.651
1-1-2/M82	1.17495	1
12-2/M82	1.24988	1
12-4/M82	0.96379	1
1-3/M82	0.87594	N/A
2-1-1/M82	1.13526	1
2-1/M82	1.24742	N/A
2-6/M82	N/A	N/A
3-2/M82	1.37527	N/A
4-1-1/M82	0.67751	N/A
4-1/M82	0.72043	N/A
4-3-2/M82	0.79865	0.445
4-3/M82	0.8908	1
5-3/M82	1.03917	1
6-2/M82	1.06937	1
6-3/M82	0.97342	1
7-1/M82	1.05162	N/A
7-2/M82	1.03035	1
9-3-2/M82	N/A	N/A

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	0.75564	0.243
IL2-6/WTpooled	1.01031	N/A
IL7-5/WTpooled	1.02378	1
IL7-3/WTpooled	N/A	N/A
IL12-4/WTpooled	1.22842	0.695
IL1-4/WTpooled	1.19125	0.417
WT/WTpooled	1.0164	0.686

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	0.97802	1

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.07923	0.671
DC3000/delta hrp 6h	1.06707	0.95
DC3000/delta hrp 12h	1.02663	1
DC3000/delta hrp 24h	1.03797	0.673

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.13229	N/A
DC3000 delta B/DC3000 delta AB	0.99903	1

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	1.00629	1
Exp 36h	2.064	0.693
Exp 60h	1.91571	0.563

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

hybridization	ratio	FDR (corrected p value)
self-self	0.91976	1
Var 0h	0.71656	1
Var 12h I row2-row1	1.14478	0.296
Var 12h NI row2-row1	1.15876	0.34
Var 36h I row2-row1	0.98977	1
Var 36h NI row2-row1	0.88028	0.478
Var 60h I row2-row1	0.9143	0.285
Var 60h NI row2-row1	0.99846	1
Time course 0hI-0hNI	1.05065	0.852
Time course 12hI-12hNI	0.98105	0.855
Time course 36hI-36hNI	1.17859	0.089
Time course 60hI-60hNI	1.28902	0.053

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)	1.08068	0.289
transgenic ySAMdc/azygous control (breaker)	1.02289	1
transgenic ySAMdc/azygous control (red)	1.00304	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.99884	0.94

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.84561	0.238

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.81766	0.172
Manapal/WT (break)	0.77971	0.299
Manapal/WT (red)	0.70157	0.181