Tomato Functional Genomics Database (TFGD)

Expression of 1-1-1.4.13.17

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.1544	0.951
27DAP/17DAP	1.13691	1
39DAP/27DAP	1.0858	0.857
41DAP/39DAP	1.28464	0.624
42DAP/41DAP	1.46924	0.712
43DAP/42DAP	0.88197	0.834
47DAP/43DAP	0.86583	0.55
52DAP/47DAP	1.41324	0.662
57DAP/52DAP	0.81488	0.772

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.99906	0.771
17DAP/reference	1.02077	0.631
27DAP/reference	1.00296	1
39DAP/reference	1.04366	0.243
41DAP/reference	1.00682	1
42DAP/reference	0.92568	0.03
43DAP/reference	1.05999	0.095
47DAP/reference	0.8718	0.003
52DAP/reference	0.88332	0.183
57DAP/reference	0.80773	0.031

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.88999	0.211
27DAP/17DAP	0.97263	0.782
39DAP/27DAP	1.0908	0.337
41DAP/39DAP	1.00961	1
42DAP/41DAP	0.96727	0.687
43DAP/42DAP	1.05169	0.627
47DAP/43DAP	1.00462	0.998
52DAP/47DAP	1.00838	0.982
57DAP/52DAP	0.9919	0.841
57DAP/7DAP	1.14263	0.365

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.84524	0.246
17DAP/reference	0.81623	0.044
27DAP/reference	0.80741	0.031
39DAP/reference	0.88899	0.034
41DAP/reference	0.92051	0.271
42DAP/reference	0.79794	0.028
43DAP/reference	0.71773	0.014
47DAP/reference	0.82904	0.128
52DAP/reference	0.89538	0.213
57DAP/reference	0.7527	0.019

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.01499	0.885
17DAP/reference	0.97351	0.523
27DAP/reference	0.99231	0.663
39DAP/reference	0.95481	0.381
41DAP/reference	0.93481	0.268
42DAP/reference	0.96125	0.289
43DAP/reference	1.10636	0.547
47DAP/reference	0.9945	0.66
52DAP/reference	0.95261	0.143
57DAP/reference	1.09803	0.581

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.89217	0.147
17DAP/reference	0.94627	0.452
27DAP/reference	0.80511	0.078
39DAP/reference	0.66873	0.01
41DAP/reference	0.83625	0.107
42DAP/reference	0.79845	0.087
43DAP/reference	0.78144	0.079
47DAP/reference	0.98239	0.558
52DAP/reference	0.7723	0.22
57DAP/reference	0.97583	0.326

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.00271	1
26DAP/20DAP	0.85291	0.512
34DAP/26DAP	0.9857	0.998
51DAP/34DAP	0.93362	0.598
52DAP/51DAP	1.04672	0.51
53DAP/52DAP	1.05434	0.806
55DAP/53DAP	1.10501	0.355
57DAP/55DAP	1.01622	1
62DAP/57DAP	1.25841	0.158
68DAP/62DAP	0.7799	0.053
68DAP/14DAP	0.89199	0.375

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.7906	0.062

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	0.50209
Mature Green Tomato/Ripe Tomato	0.95041	0.66
Immature Eggplant/Mature Eggplant	N/A	N/A
Ripe Pepper/Ripe Tomato	1.00919	1
Mature Eggplant/Ripe Tomato	0.47948	1

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	0.94992	0.961
1-1-2/M82	0.98979	1
12-2/M82	1.19983	1
12-4/M82	0.89169	1
1-3/M82	0.94659	1
2-1-1/M82	1.12002	0.439
2-1/M82	1.27338	0.312
2-6/M82	1.08701	0.594
3-2/M82	0.9321
4-1-1/M82	1.29633	0.657
4-1/M82	0.94834
4-3-2/M82	1.03363	0.508
4-3/M82	1.26244	0.268
5-3/M82	1.0089	1
6-2/M82	0.88161	0.497
6-3/M82	1.06206	1
7-1/M82	1.03785
7-2/M82	1.12132	1
9-3-2/M82	1.04349	1

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	0.16004
IL2-6/WTpooled	3.47796	0.456
IL7-5/WTpooled	0.99846	1
IL7-3/WTpooled	N/A	N/A
IL12-4/WTpooled	1.87198
IL1-4/WTpooled	1.0678	1
WT/WTpooled	1.09039	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	0.89298	0.975

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.93742	1
DC3000/delta hrp 6h	1.07563	1
DC3000/delta hrp 12h	1.04143	1
DC3000/delta hrp 24h	1.02439	0.743

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	0.91239	0.66
DC3000 delta B/DC3000 delta AB	0.99407	1

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	1.14167	1
Exp 36h	0.89385	0.749
Exp 60h	0.87496	0.522

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

hybridization	ratio	FDR (corrected p value)
self-self	0.98668	1
Var 0h	1.09329	0.421
Var 12h I row2-row1	1.1299	0.379
Var 12h NI row2-row1	0.8199	0.466
Var 36h I row2-row1	0.86977	0.438
Var 36h NI row2-row1	0.75375	0.61
Var 60h I row2-row1	1.07984	0.543
Var 60h NI row2-row1	1.30798	0.904
Time course 0hI-0hNI	1.12587	0.662
Time course 12hI-12hNI	1.09097	0.682
Time course 36hI-36hNI	0.96541	0.504
Time course 60hI-60hNI	1.18485	0.025

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)	1.24378	0.541
transgenic ySAMdc/azygous control (breaker)	1.11736	1
transgenic ySAMdc/azygous control (red)	0.8105	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.03063	0.177

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.81965	0.268

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.53198	0.172
Manapal/WT (break)	1.48128	0.381
Manapal/WT (red)	0.77401	0.242