Tomato Functional Genomics Database (TFGD)

Expression of 1-1-7.1.19.3

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.97953	0.839
27DAP/17DAP	0.78158	0.683
39DAP/27DAP	1.07818	0.857
41DAP/39DAP	0.74859	0.215
42DAP/41DAP	0.91443	1
43DAP/42DAP	0.89753	0.801
47DAP/43DAP	1.3462	0.527
52DAP/47DAP	1.39403	0.657
57DAP/52DAP	1.18677	0.935

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.00958	0.743
17DAP/reference	0.99112	0.819
27DAP/reference	1.09555	0.339
39DAP/reference	1.08185	0.14
41DAP/reference	1.00305	1
42DAP/reference	0.97074	0.25
43DAP/reference	1.06445	0.495
47DAP/reference	0.96508	0.148
52DAP/reference	0.94712	0.405
57DAP/reference	0.8447	0.025

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.00082	1
27DAP/17DAP	1.02835	0.9
39DAP/27DAP	1.06508	0.373
41DAP/39DAP	1.16101	0.362
42DAP/41DAP	0.96966	0.721
43DAP/42DAP	0.94447	0.246
47DAP/43DAP	0.98454	0.909
52DAP/47DAP	1.01333	0.956
57DAP/52DAP	1.03373	0.777
57DAP/7DAP	1.1383	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.4687	0.034
17DAP/reference	2.10451	0.007
27DAP/reference	1.60777	0.014
39DAP/reference	1.78964	0.005
41DAP/reference	1.9183	0.011
42DAP/reference	1.98574	0.012
43DAP/reference	2.39827	0.008
47DAP/reference	1.51031	0.421
52DAP/reference	1.68664	0.009
57DAP/reference	1.90771	0.004

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.03028	0.642
17DAP/reference	0.97909	0.561
27DAP/reference	0.89001	0.188
39DAP/reference	0.92004	0.168
41DAP/reference	0.84708	0.076
42DAP/reference	0.85741	0.098
43DAP/reference	0.82847	0.175
47DAP/reference	0.96526	0.129
52DAP/reference	1.0473	0.938
57DAP/reference	1.00149	0.874

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.65897	0.023
17DAP/reference	1.30716	0.456
27DAP/reference	2.40188	0.023
39DAP/reference	2.36887	0.025
41DAP/reference	1.97948	0.027
42DAP/reference	1.76578	0.042
43DAP/reference	1.7153	0.229
47DAP/reference	0.95844	0.396
52DAP/reference	2.09326	0.067
57DAP/reference	1.31097	0.572

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.9852	1
26DAP/20DAP	0.98232	1
34DAP/26DAP	0.99883	1
51DAP/34DAP	0.92957	0.537
52DAP/51DAP	0.99599	1
53DAP/52DAP	0.93305	0.684
55DAP/53DAP	1.00575	1
57DAP/55DAP	0.98085	0.863
62DAP/57DAP	1.13697	0.622
68DAP/62DAP	1.0254	0.914
68DAP/14DAP	0.73955	0.375

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.94044	0.198

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	0.94682	0.673
Mature Green Tomato/Ripe Tomato	N/A	N/A
Immature Eggplant/Mature Eggplant	1.28058	0.088
Ripe Pepper/Ripe Tomato	1.31599	1
Mature Eggplant/Ripe Tomato	2.29583	0.26

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.08346	0.877
1-1-2/M82	1.10458	1
12-2/M82	1.03196	1
12-4/M82	1.07819	1
1-3/M82	0.99674	1
2-1-1/M82	1.11305	0.764
2-1/M82	1.20901	1
2-6/M82	1.01998	0.695
3-2/M82	1.00527
4-1-1/M82	1.08971	1
4-1/M82	0.99369
4-3-2/M82	1.36363
4-3/M82	1.09857	1
5-3/M82	1.03215	0.496
6-2/M82	1.07859	1
6-3/M82	1.04218	1
7-1/M82	1.02921	0.539
7-2/M82	1.03954	1
9-3-2/M82	N/A	N/A

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	0.79951	1
IL2-6/WTpooled	0.95592	1
IL7-5/WTpooled	N/A	N/A
IL7-3/WTpooled	1.19109	1
IL12-4/WTpooled	1.00024	1
IL1-4/WTpooled	0.96358	0.834
WT/WTpooled	0.95432	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	0.79684	0.75

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.97007	1
DC3000/delta hrp 6h	0.93097	0.95
DC3000/delta hrp 12h	1.19793	1
DC3000/delta hrp 24h	0.92126	0.298

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.07043	0.076
DC3000 delta B/DC3000 delta AB	1.04263	0.579

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	0.87161	0.586

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

hybridization	ratio	FDR (corrected p value)
self-self	1.02293	1
Var 0h	0.87619	0.933
Var 12h I row2-row1	1.11444	0.283
Var 12h NI row2-row1	0.97982	0.906
Var 36h I row2-row1	0.96454	1
Var 36h NI row2-row1	0.87303	0.61
Var 60h I row2-row1	0.89492	0.832
Var 60h NI row2-row1	1.17408	0.904
Time course 0hI-0hNI	1.07982	0.799
Time course 12hI-12hNI	1.10894	0.422
Time course 36hI-36hNI	0.97139	0.302
Time course 60hI-60hNI	1.04022	0.673

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)	0.91001	0.377
transgenic ySAMdc/azygous control (breaker)	0.75773	0.142
transgenic ySAMdc/azygous control (red)	1.00101	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.0122	0.556

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.79571	0.238

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.18985	0.105
Manapal/WT (break)	0.91941	1
Manapal/WT (red)	0.77337	0.187