Tomato Functional Genomics Database (TFGD)

Expression of 1-1-4.3.8.10

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.971	0.788
27DAP/17DAP	1.26734	0.825
39DAP/27DAP	1.46712	0.148
41DAP/39DAP	1.33047	0.549
42DAP/41DAP	1.22446	0.773
43DAP/42DAP	0.98204	0.925
47DAP/43DAP	0.67234	0.106
52DAP/47DAP	1.23818	0.662
57DAP/52DAP	0.80223	0.708

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.25733	0.022
17DAP/reference	1.12898	0.025
27DAP/reference	1.11349	0.101
39DAP/reference	0.92859	0.221
41DAP/reference	1.03724	0.759
42DAP/reference	1.11131	0.311
43DAP/reference	1.00702	0.942
47DAP/reference	1.14173	0.207
52DAP/reference	1.09394	0.121
57DAP/reference	0.99828	0.805

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.17915	0.284
27DAP/17DAP	1.0319	0.969
39DAP/27DAP	1.00576	1
41DAP/39DAP	1.13876	0.705
42DAP/41DAP	1.20077	0.514
43DAP/42DAP	1.45075	0.014
47DAP/43DAP	1.12962	0.52
52DAP/47DAP	1.88447	0.11
57DAP/52DAP	2.48212	0.058
57DAP/7DAP	5.66282	0.365

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	2.5896	0.025
17DAP/reference	1.91309	0.008
27DAP/reference	1.2702	0.026
39DAP/reference	3.1117	0.005
41DAP/reference	2.12357	0.008
42DAP/reference	2.70339	0.006
43DAP/reference	3.24375	0.006
47DAP/reference	2.70818	0.017
52DAP/reference	3.05564	0.007
57DAP/reference	2.61197	0.004

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.02304	1
17DAP/reference	0.91955	0.389
27DAP/reference	0.94157	0.381
39DAP/reference	1.25296	0.085
41DAP/reference	1.13257	0.053
42DAP/reference	1.03244	1
43DAP/reference	1.03339	1
47DAP/reference	1.0035	0.625
52DAP/reference	0.83853	0.005
57DAP/reference	0.76854	0.016

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.96965	0.015
17DAP/reference	1.22057	0.767
27DAP/reference	1.39253	0.046
39DAP/reference	1.6271	0.006
41DAP/reference	1.14086	0.022
42DAP/reference	1.27854	0.094
43DAP/reference	1.70248	0.006
47DAP/reference	0.70556	0.008
52DAP/reference	1.82658	0.041
57DAP/reference	2.06313	0.008

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.2609	0.966
26DAP/20DAP	2.00075	0.099
34DAP/26DAP	0.485	0.067
51DAP/34DAP	0.96064	0.674
52DAP/51DAP	1.04356	0.676
53DAP/52DAP	1.03103	1
55DAP/53DAP	0.92145	0.515
57DAP/55DAP	1.05033	0.997
62DAP/57DAP	1.18957	0.868
68DAP/62DAP	1.22486	0.539
68DAP/14DAP	1.14023	1

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.99871	0.014

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	3.15691	0.059
Mature Green Tomato/Ripe Tomato	0.45664	0.018
Immature Eggplant/Mature Eggplant	0.44406	0.062
Ripe Pepper/Ripe Tomato	0.34049	0.224
Mature Eggplant/Ripe Tomato	0.5956	0.234

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.114	0.877
1-1-2/M82	1.04061	1
12-2/M82	1.20066	1
12-4/M82	1.07503	1
1-3/M82	1.95881	0.26
2-1-1/M82	0.99889	1
2-1/M82	0.76096
2-6/M82	0.85741	1
3-2/M82	3.62759
4-1-1/M82	0.83429	1
4-1/M82	0.92021	1
4-3-2/M82	1.25893	0.508
4-3/M82	1.29356	1
5-3/M82	0.79381	0.49
6-2/M82	1.47375	0.253
6-3/M82	1.05562	1
7-1/M82	0.96112
7-2/M82	1.17354	0.324
9-3-2/M82	1.03953	1

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	1.52873	0.365
IL2-6/WTpooled	0.98519	1
IL7-5/WTpooled	N/A	N/A
IL7-3/WTpooled	1.14577	0.362
IL12-4/WTpooled	0.94753	0.71
IL1-4/WTpooled	1.09619	1
WT/WTpooled	0.85376	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	1.02424	1

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.09017	0.914
DC3000/delta hrp 6h	0.82142	0.95
DC3000/delta hrp 12h	1.24064	1
DC3000/delta hrp 24h	1.00014	1

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.19489	0.229
DC3000 delta B/DC3000 delta AB	1.06902	0.558

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	0.68469	1
Exp 36h	0.96273	0.943
Exp 60h	0.7855	0.522

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

hybridization	ratio	FDR (corrected p value)
self-self	1.01037	1
Var 0h	1.00912	1
Var 12h I row2-row1	1.18465	0.613
Var 12h NI row2-row1	1.09677	0.649
Var 36h I row2-row1	0.66973	0.575
Var 36h NI row2-row1	1.2104	1
Var 60h I row2-row1	0.68118	0.285
Var 60h NI row2-row1	1.36504	0.904
Time course 0hI-0hNI	1.10918	0.603
Time course 12hI-12hNI	0.85376	0.105
Time course 36hI-36hNI	0.93403	0.337
Time course 60hI-60hNI	1.94382	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)	1.07934	0.541
transgenic ySAMdc/azygous control (breaker)	0.63822	0.173
transgenic ySAMdc/azygous control (red)	0.92025	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.03442	0.055

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.99687	1

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.79321	1
Manapal/WT (break)	1.22212	1
Manapal/WT (red)	0.95935	0.728