Tomato Functional Genomics Database (TFGD)

Expression of 1-1-5.4.19.8

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.06106	0.851
27DAP/17DAP	1.34793	0.677
39DAP/27DAP	1.10164	0.853
41DAP/39DAP	1.12627	0.516
42DAP/41DAP	0.97415	1
43DAP/42DAP	1.14738	0.787
47DAP/43DAP	1.15599	0.469
52DAP/47DAP	1.06352	0.906
57DAP/52DAP	1.02709	0.969

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.26388	0.126
17DAP/reference	1.29345	0.074
27DAP/reference	1.42214	0.036
39DAP/reference	1.39619	0.035
41DAP/reference	1.33426	0.019
42DAP/reference	1.08861	0.731
43DAP/reference	0.99531	0.904
47DAP/reference	1.0141	1
52DAP/reference	1.78043	0.008
57DAP/reference	N/A	N/A

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.92972	0.428
27DAP/17DAP	1.01933	0.957
39DAP/27DAP	1.09306	0.447
41DAP/39DAP	0.96491	0.885
42DAP/41DAP	1.02635	0.893
43DAP/42DAP	1.09075	0.23
47DAP/43DAP	1.03661	0.713
52DAP/47DAP	1.02492	0.9
57DAP/52DAP	1.05573	0.753
57DAP/7DAP	0.98387	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.09831	0.298
17DAP/reference	0.92355	0.253
27DAP/reference	1.00565	1
39DAP/reference	1.24472	0.046
41DAP/reference	0.97623	0.512
42DAP/reference	0.93145	0.338
43DAP/reference	0.92738	0.115
47DAP/reference	1.13154	0.632
52DAP/reference	0.93898	0.363
57DAP/reference	0.72188	0.009

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.94766	0.532
17DAP/reference	1.05909	0.806
27DAP/reference	1.19607	0.359
39DAP/reference	1.38961	0.025
41DAP/reference	1.56949	0.007
42DAP/reference	1.45754	0.009
43DAP/reference	1.07014	0.681
47DAP/reference	1.37807	0.008
52DAP/reference	1.4165	0.009
57DAP/reference	1.05625	0.688

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.01613	1
17DAP/reference	1.06007	0.563
27DAP/reference	0.90476	0.147
39DAP/reference	1.0105	0.889
41DAP/reference	0.97472	0.56
42DAP/reference	1.33753	0.163
43DAP/reference	1.31488	0.734
47DAP/reference	1.31359	0.02
52DAP/reference	1.01327	0.821
57DAP/reference	2.04135	0.033

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.07355	0.966
26DAP/20DAP	0.90033	0.317
34DAP/26DAP	1.12932	0.819
51DAP/34DAP	1.08289	0.458
52DAP/51DAP	0.99947	1
53DAP/52DAP	1.03513	0.753
55DAP/53DAP	1.14252	0.387
57DAP/55DAP	1.09048	0.682
62DAP/57DAP	1.10034	0.833
68DAP/62DAP	1.14426	0.808
68DAP/14DAP	1.10558	0.87

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.00443	1

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	N/A	N/A
Mature Green Tomato/Ripe Tomato	0.88857	0.287
Immature Eggplant/Mature Eggplant	N/A	N/A
Ripe Pepper/Ripe Tomato	0.38058
Mature Eggplant/Ripe Tomato	0.34117	1

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	N/A	N/A
1-1-2/M82	0.73252
12-2/M82	0.78621
12-4/M82	0.86166	1
1-3/M82	N/A	N/A
2-1-1/M82	N/A	N/A
2-1/M82	N/A	N/A
2-6/M82	1.14278
3-2/M82	0.85381
4-1-1/M82	N/A	N/A
4-1/M82	1.08288	1
4-3-2/M82	0.90085	1
4-3/M82	N/A	N/A
5-3/M82	0.90515
6-2/M82	N/A	N/A
6-3/M82	N/A	N/A
7-1/M82	N/A	N/A
7-2/M82	1.17605
9-3-2/M82	0.99041	1

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	0.97542
IL2-6/WTpooled	1.00115	1
IL7-5/WTpooled	1.3602	0.792
IL7-3/WTpooled	0.82106
IL12-4/WTpooled	1.11248	0.891
IL1-4/WTpooled	0.91452	0.444
WT/WTpooled	1.00849	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	1.14003	0.479

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.94091	1
DC3000/delta hrp 6h	N/A	N/A
DC3000/delta hrp 12h	1.11687	1
DC3000/delta hrp 24h	0.43388	0.034

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.39083	0.134
DC3000 delta B/DC3000 delta AB	0.96825	0.745

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	3.08739	1
Exp 36h	N/A	N/A
Exp 60h	0.8807	0.754

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

hybridization	ratio	FDR (corrected p value)
self-self	0.99791	1
Var 0h	N/A	N/A
Var 12h I row2-row1	1.15896	0.199
Var 12h NI row2-row1	0.95444	0.546
Var 36h I row2-row1	0.89799	1
Var 36h NI row2-row1	1.05327	1
Var 60h I row2-row1	1.04039	1
Var 60h NI row2-row1	1.06217	0.904
Time course 0hI-0hNI	1.04524	0.662
Time course 12hI-12hNI	1.00765	0.861
Time course 36hI-36hNI	1.076	0.044
Time course 60hI-60hNI	1.51768	0.008

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)	1.06411	0.931
transgenic ySAMdc/azygous control (breaker)	1.06656	1
transgenic ySAMdc/azygous control (red)	0.99407	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.93435	0.305

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.9422	0.268

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	N/A	N/A
Manapal/WT (break)	0.88814	1
Manapal/WT (red)	3.13822	0.137