Tomato Functional Genomics Database (TFGD)

Expression of 1-1-5.4.13.1

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.93595	0.558
27DAP/17DAP	0.97805	0.996
39DAP/27DAP	1.02702	0.992
41DAP/39DAP	0.94414	0.756
42DAP/41DAP	1.03941	1
43DAP/42DAP	0.93397	0.846
47DAP/43DAP	0.98082	0.904
52DAP/47DAP	1.32758	0.538
57DAP/52DAP	0.9789	0.974

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.9635	0.476
17DAP/reference	0.99671	0.957
27DAP/reference	0.92224	0.257
39DAP/reference	1.04537	0.403
41DAP/reference	0.99928	1
42DAP/reference	1.13228	0.001
43DAP/reference	1.01589	0.787
47DAP/reference	1.08918	0.06
52DAP/reference	1.10933	0.038
57DAP/reference	1.06582	0.166

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.95272	0.613
27DAP/17DAP	0.96015	0.684
39DAP/27DAP	0.95454	0.502
41DAP/39DAP	1.0326	0.79
42DAP/41DAP	0.96973	0.684
43DAP/42DAP	0.99075	0.854
47DAP/43DAP	1.0286	0.822
52DAP/47DAP	0.98813	0.947
57DAP/52DAP	0.9927	0.845
57DAP/7DAP	0.9419

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.93288	0.138
17DAP/reference	0.95742	0.295
27DAP/reference	1.07837	0.131
39DAP/reference	1.01433	0.705
41DAP/reference	1.03023	0.491
42DAP/reference	1.04501	0.233
43DAP/reference	1.03133	0.672
47DAP/reference	1.02906	0.791
52DAP/reference	1.01574	0.563
57DAP/reference	0.95497	0.411

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.02271	0.612
17DAP/reference	1.01178	0.892
27DAP/reference	0.98934	0.619
39DAP/reference	0.92871	0.136
41DAP/reference	0.93353	0.177
42DAP/reference	0.99115	0.594
43DAP/reference	1.05137	0.362
47DAP/reference	1.03538	0.301
52DAP/reference	0.98097	0.433
57DAP/reference	0.94181	0.194

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.96775	0.135
17DAP/reference	0.93167	0.092
27DAP/reference	0.97654	0.657
39DAP/reference	0.91542	0.018
41DAP/reference	0.97189	0.264
42DAP/reference	1.09074	0.433
43DAP/reference	0.97139	0.449
47DAP/reference	0.98916	0.593
52DAP/reference	1.04695	0.694
57DAP/reference	0.91142	0.039

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.03076	0.966
26DAP/20DAP	1.11045	0.549
34DAP/26DAP	1.0303	1
51DAP/34DAP	1.01662	0.898
52DAP/51DAP	1.06523	0.676
53DAP/52DAP	1.01474	0.882
55DAP/53DAP	0.94905	0.43
57DAP/55DAP	0.96548	0.875
62DAP/57DAP	0.93939	0.871
68DAP/62DAP	0.97751	0.863
68DAP/14DAP	1.01956	1

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.07564	0.151

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	0.84878	0.312
Mature Green Tomato/Ripe Tomato	0.99337	0.774
Immature Eggplant/Mature Eggplant	0.99872	1
Ripe Pepper/Ripe Tomato	0.56736	0.293
Mature Eggplant/Ripe Tomato	0.19294	0.234

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.03474	1
1-1-2/M82	0.95852	0.958
12-2/M82	0.95671	0.955
12-4/M82	1.00551	1
1-3/M82	1.06385	0.479
2-1-1/M82	0.99596	1
2-1/M82	0.87178	0.322
2-6/M82	0.96494	1
3-2/M82	0.98153	1
4-1-1/M82	1.00476	1
4-1/M82	1.01758	1
4-3-2/M82	0.98094	1
4-3/M82	0.90218	0.72
5-3/M82	0.98448	1
6-2/M82	1.02146	1
6-3/M82	1.01724	1
7-1/M82	0.96933	0.803
7-2/M82	0.92174	0.796
9-3-2/M82	0.82528	0.355

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	N/A	N/A
IL2-6/WTpooled	1.00073	1
IL7-5/WTpooled	N/A	N/A
IL7-3/WTpooled	1.23109	0.362
IL12-4/WTpooled	1.0949	0.839
IL1-4/WTpooled	1.02799
WT/WTpooled	0.88041	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	1.13054	0.853

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.98513	1
DC3000/delta hrp 6h	0.97942	0.95
DC3000/delta hrp 12h	1.0533	1
DC3000/delta hrp 24h	1.03328	0.673

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.18025	0.05
DC3000 delta B/DC3000 delta AB	1.42144	0.081

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	1.04909	1
Exp 36h	1.58255	1
Exp 60h	1.09311	1

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

hybridization	ratio	FDR (corrected p value)
self-self	1.00829	1
Var 0h	0.89167	0.332
Var 12h I row2-row1	1.21483	0.242
Var 12h NI row2-row1	1.00251	1
Var 36h I row2-row1	1.23325	1
Var 36h NI row2-row1	0.97707	0.791
Var 60h I row2-row1	0.93007	0.439
Var 60h NI row2-row1	0.96503	1
Time course 0hI-0hNI	1.03836	1
Time course 12hI-12hNI	1.05736	0.773
Time course 36hI-36hNI	1.0816	0.28
Time course 60hI-60hNI	2.64646	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)	0.90955	0.485
transgenic ySAMdc/azygous control (breaker)	1.05233	1
transgenic ySAMdc/azygous control (red)	1.16606	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.95075	0.074

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.14809	0.239

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.72163	0.172
Manapal/WT (break)	0.79443	0.333
Manapal/WT (red)	0.95978	0.728