Tomato Functional Genomics Database (TFGD)

Expression of 1-1-4.1.15.14

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.03447	1
27DAP/17DAP	1.05611	0.881
39DAP/27DAP	1.04513	1
41DAP/39DAP	0.94755	0.756
42DAP/41DAP	1.03586	1
43DAP/42DAP	1.0983	0.956
47DAP/43DAP	1.32951	0.429
52DAP/47DAP	0.84358	0.595
57DAP/52DAP	1.04471	1

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.93684	0.217
17DAP/reference	1.05682	0.132
27DAP/reference	1.00661	0.966
39DAP/reference	1.01046	0.816
41DAP/reference	1.03842	0.667
42DAP/reference	0.96128	0.095
43DAP/reference	1.03539	0.569
47DAP/reference	0.97427	0.279
52DAP/reference	0.80088	0.051
57DAP/reference	1.02089	0.682

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.0848	0.431
27DAP/17DAP	0.97693	0.854
39DAP/27DAP	0.99457	1
41DAP/39DAP	1.03138	0.79
42DAP/41DAP	1.0041	0.924
43DAP/42DAP	1.02596	0.413
47DAP/43DAP	0.9968	0.99
52DAP/47DAP	1.02164	0.919
57DAP/52DAP	0.95318	0.537
57DAP/7DAP	0.98227	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.0959	0.332
17DAP/reference	0.9419	0.124
27DAP/reference	0.94812	0.231
39DAP/reference	0.87878	0.012
41DAP/reference	0.8901	0.022
42DAP/reference	0.95137	0.304
43DAP/reference	1.00822	0.802
47DAP/reference	0.91158	0.222
52DAP/reference	0.93018	0.027
57DAP/reference	1.05558	0.907

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.08027	0.758
17DAP/reference	0.95621	0.245
27DAP/reference	0.85168	0.038
39DAP/reference	0.85267	0.072
41DAP/reference	0.87948	0.052
42DAP/reference	0.91042	0.189
43DAP/reference	0.92083	0.217
47DAP/reference	1.03178	0.712
52DAP/reference	0.90321	0.01
57DAP/reference	0.94542	0.278

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.99655	0.804
17DAP/reference	0.934	0.141
27DAP/reference	0.99575	0.763
39DAP/reference	1.1265	0.029
41DAP/reference	0.90583	0.148
42DAP/reference	0.86895	0.087
43DAP/reference	0.90092	0.158
47DAP/reference	0.99595	0.667
52DAP/reference	1.00846	0.946
57DAP/reference	0.79101	0.023

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.00818	1
26DAP/20DAP	0.97474	1
34DAP/26DAP	1.02383	1
51DAP/34DAP	0.96856	0.737
52DAP/51DAP	0.97755	1
53DAP/52DAP	1.01413	1
55DAP/53DAP	0.89554	0.445
57DAP/55DAP	0.90766	0.691
62DAP/57DAP	1.01078	0.833
68DAP/62DAP	1.11171	0.646
68DAP/14DAP	1.1263	0.366

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.9891	0.665

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	1.21767	0.417
Mature Green Tomato/Ripe Tomato	1.16955	0.752
Immature Eggplant/Mature Eggplant	1.21617	0.248
Ripe Pepper/Ripe Tomato	N/A	N/A
Mature Eggplant/Ripe Tomato	1.47854

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	N/A	N/A
1-1-2/M82	1.01507
12-2/M82	N/A	N/A
12-4/M82	0.91088
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	N/A	N/A
3-2/M82	N/A	N/A
4-1-1/M82	N/A	N/A
4-1/M82	1.12376	0.853
4-3-2/M82	0.87946	0.37
4-3/M82	N/A	N/A
5-3/M82	N/A	N/A
6-2/M82	N/A	N/A
6-3/M82	N/A	N/A
7-1/M82	N/A	N/A
7-2/M82	N/A	N/A
9-3-2/M82	0.87555	0.449

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	0.81577	0.247
IL2-6/WTpooled	1.13365	0.659
IL7-5/WTpooled	0.96353	1
IL7-3/WTpooled	0.99635	1
IL12-4/WTpooled	0.88048	0.71
IL1-4/WTpooled	1.09393	1
WT/WTpooled	1.0513	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	1.01603	1

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	N/A	N/A
DC3000/delta hrp 6h	1.26448	1
DC3000/delta hrp 12h	1.01082	1
DC3000/delta hrp 24h	N/A	N/A

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.00653	0.598
DC3000 delta B/DC3000 delta AB	1.04295	0.535

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	1.02566	1
Exp 36h	N/A	N/A
Exp 60h	1.10732	0.563

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

hybridization	ratio	FDR (corrected p value)
self-self	0.97675	1
Var 0h	1.27164	0.782
Var 12h I row2-row1	1.17093	0.242
Var 12h NI row2-row1	0.97821	0.906
Var 36h I row2-row1	1.02061	1
Var 36h NI row2-row1	0.96377	0.791
Var 60h I row2-row1	1.08649	1
Var 60h NI row2-row1	0.99031	1
Time course 0hI-0hNI	1.03051	0.867
Time course 12hI-12hNI	1.03671	0.82
Time course 36hI-36hNI	0.94015	0.38
Time course 60hI-60hNI	1.18318	0.019

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)	0.92992	0.377
transgenic ySAMdc/azygous control (breaker)	1.28229	1
transgenic ySAMdc/azygous control (red)	1.23411	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.97759	0.177

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.16533	0.277

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.96935	1
Manapal/WT (break)	0.84018	1
Manapal/WT (red)	1.73956	0.413