Tomato Functional Genomics Database (TFGD)

Expression of 1-1-8.4.8.6

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.14067	0.927
27DAP/17DAP	1.01643	1
39DAP/27DAP	0.73057	0.361
41DAP/39DAP	1.29722	0.313
42DAP/41DAP	1.2318	0.908
43DAP/42DAP	0.95461	0.895
47DAP/43DAP	1.2874	0.369
52DAP/47DAP	1.13065	0.821
57DAP/52DAP	1.09671	0.912

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.91612	0.211
17DAP/reference	1.17172	0.014
27DAP/reference	1.01686	0.909
39DAP/reference	1.03443	0.771
41DAP/reference	1.15294	0.145
42DAP/reference	0.86938	0.005
43DAP/reference	1.0157	0.928
47DAP/reference	0.96047	0.3
52DAP/reference	0.70221	0.013
57DAP/reference	0.80887	0.045

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.00707	1
27DAP/17DAP	0.91034	0.121
39DAP/27DAP	1.03656	0.643
41DAP/39DAP	1.05099	0.827
42DAP/41DAP	1.00553	0.936
43DAP/42DAP	1.06644	0.25
47DAP/43DAP	1.03947	0.749
52DAP/47DAP	1.02302	0.933
57DAP/52DAP	0.98976	0.818
57DAP/7DAP	1.09149	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.81467	0.104
17DAP/reference	0.82954	0.253
27DAP/reference	0.84727	0.017
39DAP/reference	1.29943	0.74
41DAP/reference	1.02568	0.678
42DAP/reference	0.97814	0.506
43DAP/reference	0.95238	0.351
47DAP/reference	0.86173	0.057
52DAP/reference	0.95396	0.363
57DAP/reference	0.93736	0.302

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.01414	0.952
17DAP/reference	0.94852	0.287
27DAP/reference	0.76228	0.027
39DAP/reference	0.83909	0.168
41DAP/reference	0.89675	0.073
42DAP/reference	0.88261	0.169
43DAP/reference	1.13377	0.411
47DAP/reference	0.95155	0.27
52DAP/reference	0.9189	0.111
57DAP/reference	1.11116	0.296

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.9409	0.362
17DAP/reference	0.89415	0.3
27DAP/reference	0.9883	0.691
39DAP/reference	0.9558	0.328
41DAP/reference	0.9775	0.618
42DAP/reference	0.87524	0.287
43DAP/reference	0.8319	0.143
47DAP/reference	0.93893	0.348
52DAP/reference	1.0395	1
57DAP/reference	0.56648	0.017

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.99949	1
26DAP/20DAP	0.93548	0.512
34DAP/26DAP	1.02377	1
51DAP/34DAP	1.24437	0.048
52DAP/51DAP	0.92101	0.151
53DAP/52DAP	1.10558	0.537
55DAP/53DAP	0.93302	0.363
57DAP/55DAP	0.99384	0.891
62DAP/57DAP	1.21379	0.678
68DAP/62DAP	1.20811	0.682
68DAP/14DAP	0.84451	1

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.85259	0.048

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	0.16671	0.056
Mature Green Tomato/Ripe Tomato	1.61254	0.038
Immature Eggplant/Mature Eggplant	0.67797	0.074
Ripe Pepper/Ripe Tomato	20.1487	0.258
Mature Eggplant/Ripe Tomato	6.56682	0.26

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.1181	0.742
1-1-2/M82	0.84079	1
12-2/M82	1.10522	1
12-4/M82	0.88002	0.619
1-3/M82	0.90109
2-1-1/M82	N/A	N/A
2-1/M82	N/A	N/A
2-6/M82	1.10092	0.695
3-2/M82	0.84963
4-1-1/M82	0.93103
4-1/M82	0.65075
4-3-2/M82	0.84486	0.698
4-3/M82	N/A	N/A
5-3/M82	1.09224	1
6-2/M82	N/A	N/A
6-3/M82	1.37736
7-1/M82	1.2649	1
7-2/M82	0.89859	0.578
9-3-2/M82	0.93489	0.355

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	1.61239
IL2-6/WTpooled	1.02357	1
IL7-5/WTpooled	0.04337
IL7-3/WTpooled	1.63493	0.362
IL12-4/WTpooled	0.37023	0.543
IL1-4/WTpooled	0.77156
WT/WTpooled	0.64477	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	0.93321	0.975

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.1539	0.914
DC3000/delta hrp 6h	1.47269	1
DC3000/delta hrp 12h	0.94912	1
DC3000/delta hrp 24h	0.94521	0.585

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	0.78456	0.04
DC3000 delta B/DC3000 delta AB	0.75379	0.027

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	N/A	N/A
Exp 36h	1.06517	1
Exp 60h	1.32289	1

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

hybridization	ratio	FDR (corrected p value)
self-self	0.97907	1
Var 0h	1.00269	1
Var 12h I row2-row1	0.81707	0.357
Var 12h NI row2-row1	0.88036	0.494
Var 36h I row2-row1	1.0474	1
Var 36h NI row2-row1	1.30446	0.482
Var 60h I row2-row1	1.47311	0.562
Var 60h NI row2-row1	1.01859	1
Time course 0hI-0hNI	1.0405	0.799
Time course 12hI-12hNI	0.98025	0.886
Time course 36hI-36hNI	0.83501	0.077
Time course 60hI-60hNI	0.29198	0.005

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)	0.88145	0.246
transgenic ySAMdc/azygous control (breaker)	1.1416	0.248
transgenic ySAMdc/azygous control (red)	1.04656	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.98333	0.486

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.79844	0.241

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.424	0.09
Manapal/WT (break)	1.00934	1
Manapal/WT (red)	1.0395	1