Tomato Functional Genomics Database (TFGD)

Expression of 1-1-3.1.13.5

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.99964	0.951
27DAP/17DAP	1.13182	0.89
39DAP/27DAP	0.84746	0.512
41DAP/39DAP	1.31926	0.344
42DAP/41DAP	1.16494	0.873
43DAP/42DAP	0.8739	0.705
47DAP/43DAP	1.06604	0.825
52DAP/47DAP	1.09229	0.819
57DAP/52DAP	0.97644	0.971

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.98229	0.589
17DAP/reference	1.07197	0.143
27DAP/reference	1.02145	0.806
39DAP/reference	1.0009	1
41DAP/reference	0.94759	0.542
42DAP/reference	0.99887	0.665
43DAP/reference	1.01217	0.838
47DAP/reference	0.93392	0.071
52DAP/reference	0.99053	0.636
57DAP/reference	0.94054	0.199

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.02585	0.728
27DAP/17DAP	1.05193	0.817
39DAP/27DAP	0.99043	0.953
41DAP/39DAP	1.0898	0.735
42DAP/41DAP	0.96479	0.726
43DAP/42DAP	0.98221	0.831
47DAP/43DAP	0.97437	0.855
52DAP/47DAP	1.01218	0.956
57DAP/52DAP	1.04501	0.726
57DAP/7DAP	1.0353	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.9356	0.095
17DAP/reference	0.93306	0.011
27DAP/reference	0.91879	0.012
39DAP/reference	0.98392	0.307
41DAP/reference	0.98362	0.469
42DAP/reference	1.03115	0.174
43DAP/reference	0.91914	0.042
47DAP/reference	0.94074	0.222
52DAP/reference	0.93227	0.066
57DAP/reference	1.03847	0.571

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.04291	0.47
17DAP/reference	0.99173	0.642
27DAP/reference	0.93327	0.229
39DAP/reference	0.93864	0.136
41DAP/reference	1.09074	0.657
42DAP/reference	0.98576	0.594
43DAP/reference	1.02472	0.802
47DAP/reference	1.06535	0.112
52DAP/reference	0.95026	0.101
57DAP/reference	1.07354	0.314

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.97683	0.489
17DAP/reference	1.01911	0.898
27DAP/reference	0.92777	0.028
39DAP/reference	0.91434	0.04
41DAP/reference	0.9367	0.185
42DAP/reference	0.87056	0.036
43DAP/reference	0.91031	0.054
47DAP/reference	0.97676	0.478
52DAP/reference	0.90056	0.22
57DAP/reference	0.7822	0.022

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.94311	0.807
26DAP/20DAP	0.93149	0.512
34DAP/26DAP	1.0451	0.819
51DAP/34DAP	0.93038	0.513
52DAP/51DAP	1.00471	0.939
53DAP/52DAP	1.0361	0.83
55DAP/53DAP	0.98726	0.864
57DAP/55DAP	1.30822	0.311
62DAP/57DAP	0.90362	0.681
68DAP/62DAP	0.91062	0.641
68DAP/14DAP	0.87706	1

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.00801	1

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	0.99941
Mature Green Tomato/Ripe Tomato	0.97735	0.66
Immature Eggplant/Mature Eggplant	1.37573	0.248
Ripe Pepper/Ripe Tomato	N/A	N/A
Mature Eggplant/Ripe Tomato	N/A	N/A

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	0.9615	0.961
1-1-2/M82	0.90913	0.804
12-2/M82	1.08645	1
12-4/M82	0.9668	1
1-3/M82	0.99043	1
2-1-1/M82	1.10977	0.764
2-1/M82	1.16049	0.234
2-6/M82	1.04899	0.345
3-2/M82	1.00479	1
4-1-1/M82	0.85064	0.847
4-1/M82	1.01891
4-3-2/M82	0.83706	0.698
4-3/M82	0.85037	0.72
5-3/M82	1.01748	1
6-2/M82	1.04316	1
6-3/M82	1.01235	1
7-1/M82	1.04624	1
7-2/M82	0.91836	0.54
9-3-2/M82	0.87598	0.449

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	N/A	N/A
IL2-6/WTpooled	1.10703	0.659
IL7-5/WTpooled	N/A	N/A
IL7-3/WTpooled	0.99928	1
IL12-4/WTpooled	1.02928	0.891
IL1-4/WTpooled	1.02868
WT/WTpooled	1.19176	0.999

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	1.01571	0.921
DC3000/delta hrp 6h	1.34311	1
DC3000/delta hrp 12h	1.02086	1
DC3000/delta hrp 24h	0.96171	0.7

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	0.92452	0.081
DC3000 delta B/DC3000 delta AB	0.97028	0.729

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	N/A	N/A
Exp 36h	N/A	N/A
Exp 60h	N/A	N/A

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

hybridization	ratio	FDR (corrected p value)
self-self	1.01979	1
Var 0h	1.13362	0.782
Var 12h I row2-row1	1.06241	0.443
Var 12h NI row2-row1	0.9138	0.546
Var 36h I row2-row1	0.95163	1
Var 36h NI row2-row1	0.91089	0.706
Var 60h I row2-row1	1.24067	0.562
Var 60h NI row2-row1	1.13095	0.904
Time course 0hI-0hNI	1.06448	0.852
Time course 12hI-12hNI	1.03881	0.777
Time course 36hI-36hNI	0.99808	0.798
Time course 60hI-60hNI	1.05772	0.359

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)	1.17034	0.331
transgenic ySAMdc/azygous control (breaker)	1.54688	0.162
transgenic ySAMdc/azygous control (red)	1.31834	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.02723	0.35

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.8794	0.241

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.81629	0.172
Manapal/WT (break)	0.90781	1
Manapal/WT (red)	1.40062	0.137