Tomato Functional Genomics Database (TFGD)

Expression of 1-1-1.4.15.6

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.04566	0.938
27DAP/17DAP	0.88581	0.779
39DAP/27DAP	0.90135	0.564
41DAP/39DAP	1.71363	0.185
42DAP/41DAP	1.0609	1
43DAP/42DAP	0.83673	0.705
47DAP/43DAP	1.23962	0.856
52DAP/47DAP	1.81632	0.195
57DAP/52DAP	0.78815	0.679

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.93366	0.106
17DAP/reference	0.97075	0.342
27DAP/reference	1.00496	1
39DAP/reference	0.98502	0.762
41DAP/reference	0.99544	1
42DAP/reference	0.89157	0.007
43DAP/reference	0.94038	0.331
47DAP/reference	0.92945	0.046
52DAP/reference	0.9576	0.33
57DAP/reference	0.87303	0.138

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.98903	0.782
27DAP/17DAP	1.0636	0.859
39DAP/27DAP	1.09494	0.558
41DAP/39DAP	1.06042	0.921
42DAP/41DAP	1.1384	0.622
43DAP/42DAP	1.04839	0.699
47DAP/43DAP	0.97342	0.861
52DAP/47DAP	0.99806	0.969
57DAP/52DAP	0.94616	0.581
57DAP/7DAP	1.16985	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.81009	0.077
17DAP/reference	0.87238	0.013
27DAP/reference	0.86197	0.014
39DAP/reference	0.85079	0.011
41DAP/reference	0.89468	0.079
42DAP/reference	0.88206	0.012
43DAP/reference	0.819	0.015
47DAP/reference	0.9004	0.128
52DAP/reference	0.81217	0.013
57DAP/reference	0.78197	0.012

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.01538	0.933
17DAP/reference	0.96042	0.378
27DAP/reference	0.92026	0.188
39DAP/reference	0.84753	0.093
41DAP/reference	0.90842	0.115
42DAP/reference	0.91722	0.321
43DAP/reference	1.262	0.142
47DAP/reference	0.98374	0.543
52DAP/reference	1.02665	0.444
57DAP/reference	1.05883	1

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.86001	0.039
17DAP/reference	0.96826	0.537
27DAP/reference	0.79201	0.028
39DAP/reference	0.81544	0.029
41DAP/reference	0.89434	0.033
42DAP/reference	0.85221	0.036
43DAP/reference	0.77108	0.021
47DAP/reference	1.00806	1
52DAP/reference	0.7897	0.145
57DAP/reference	0.66984	0.03

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.92578	0.915
26DAP/20DAP	0.83345	0.512
34DAP/26DAP	1.04734	1
51DAP/34DAP	1.05288	0.854
52DAP/51DAP	1.02635	0.925
53DAP/52DAP	1.05832	0.797
55DAP/53DAP	1.01199	0.951
57DAP/55DAP	0.93044	0.652
62DAP/57DAP	1.10195	0.35
68DAP/62DAP	0.86606	0.263
68DAP/14DAP	0.94241	1

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.70052	0.059

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	N/A	N/A
Mature Green Tomato/Ripe Tomato	1.28439	0.185
Immature Eggplant/Mature Eggplant	N/A	N/A
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	1.03756	1
1-1-2/M82	N/A	N/A
12-2/M82	1.23054	1
12-4/M82	0.95317	1
1-3/M82	0.94476	0.501
2-1-1/M82	N/A	N/A
2-1/M82	1.00023
2-6/M82	1.07539	0.695
3-2/M82	N/A	N/A
4-1-1/M82	1.03112	1
4-1/M82	1.18215	0.853
4-3-2/M82	N/A	N/A
4-3/M82	0.89876
5-3/M82	0.93285	1
6-2/M82	0.89822	1
6-3/M82	1.09446	1
7-1/M82	1.77804
7-2/M82	1.11337	1
9-3-2/M82	N/A	N/A

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	1.77887	0.277
IL2-6/WTpooled	1.37613	0.46
IL7-5/WTpooled	0.72187	1
IL7-3/WTpooled	1.26938	1
IL12-4/WTpooled	1.21313	0.624
IL1-4/WTpooled	1.32608	0.426
WT/WTpooled	0.97554	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	1.29695

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.04207	0.921
DC3000/delta hrp 6h	N/A	N/A
DC3000/delta hrp 12h	1.31627	1
DC3000/delta hrp 24h	1.02493	0.779

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	0.79214	0.045
DC3000 delta B/DC3000 delta AB	0.94621	0.589

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	1.16361	0.563

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

hybridization	ratio	FDR (corrected p value)
self-self	0.95571	1
Var 0h	0.46483	0.933
Var 12h I row2-row1	1.01496	1
Var 12h NI row2-row1	0.90326	0.627
Var 36h I row2-row1	0.89952	0.805
Var 36h NI row2-row1	1.8431	1
Var 60h I row2-row1	1.34664	0.562
Var 60h NI row2-row1	1.19012	0.904
Time course 0hI-0hNI	1.11122	0.719
Time course 12hI-12hNI	1.0395	0.82
Time course 36hI-36hNI	0.89382	0.132
Time course 60hI-60hNI	1.10288	0.254

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)	1.04412	0.722
transgenic ySAMdc/azygous control (breaker)	1.5045	0.178
transgenic ySAMdc/azygous control (red)	1.31308	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.0147	0.372

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.07444	1

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.62433	1
Manapal/WT (break)	0.7025	1
Manapal/WT (red)	0.54493	0.181