Tomato Functional Genomics Database (TFGD)

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Expression of 1-1-4.1.19.1

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.28924	0.403
27DAP/17DAP	1.13175	0.849
39DAP/27DAP	0.90674	0.594
41DAP/39DAP	1.38481	0.376
42DAP/41DAP	1.02268	1
43DAP/42DAP	1.13592	0.957
47DAP/43DAP	1.01854	0.92
52DAP/47DAP	1.26116	0.691
57DAP/52DAP	1.08931	0.977

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.10212	0.132
17DAP/reference	1.13201	0.053
27DAP/reference	1.0439	0.509
39DAP/reference	0.97605	0.638
41DAP/reference	1.01739	1
42DAP/reference	0.99969	0.688
43DAP/reference	0.97245	0.555
47DAP/reference	0.95392	0.3
52DAP/reference	0.93986	0.35
57DAP/reference	0.91743	0.091

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.65523	0.208
27DAP/17DAP	1.02062	0.969
39DAP/27DAP	0.79584	0.291
41DAP/39DAP	1.14965	0.656
42DAP/41DAP	0.81677	0.213
43DAP/42DAP	1.00268	0.801
47DAP/43DAP	1.05125	0.939
52DAP/47DAP	0.91371	0.491
57DAP/52DAP	1.62945	0.131
57DAP/7DAP	0.89329	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.82044	0.129
17DAP/reference	0.816	0.072
27DAP/reference	0.85234	0.109
39DAP/reference	0.80297	0.013
41DAP/reference	0.85646	0.067
42DAP/reference	0.75133	0.017
43DAP/reference	0.92889	0.266
47DAP/reference	1.03334	0.965
52DAP/reference	0.81276	0.027
57DAP/reference	0.98282	0.53

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.9968	0.93
17DAP/reference	0.97288	0.422
27DAP/reference	0.91409	0.212
39DAP/reference	0.97812	0.469
41DAP/reference	0.90684	0.074
42DAP/reference	0.89547	0.135
43DAP/reference	0.92082	0.175
47DAP/reference	1.03415	0.572
52DAP/reference	0.96789	0.407
57DAP/reference	0.96096	0.361

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.87009	0.068
17DAP/reference	0.98619	0.739
27DAP/reference	0.99918	0.763
39DAP/reference	0.86778	0.101
41DAP/reference	0.85786	0.032
42DAP/reference	0.86103	0.134
43DAP/reference	0.74269	0.019
47DAP/reference	0.99398	0.646
52DAP/reference	1.1959	0.542
57DAP/reference	0.84827	0.077

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.17697	0.752
26DAP/20DAP	1.18342	0.46
34DAP/26DAP	1.15942	1
51DAP/34DAP	0.94033	0.703
52DAP/51DAP	1.09659	0.842
53DAP/52DAP	1.33868	0.688
55DAP/53DAP	1.06086	0.976
57DAP/55DAP	0.95529	0.817
62DAP/57DAP	1.42479	0.158
68DAP/62DAP	0.91689	0.609
68DAP/14DAP	0.91987	1

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.07492	0.855

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	0.84809	0.384
Mature Green Tomato/Ripe Tomato	1.07434	1
Immature Eggplant/Mature Eggplant	0.85704	0.254
Ripe Pepper/Ripe Tomato	0.9621	N/A
Mature Eggplant/Ripe Tomato	1.55183	N/A

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	N/A	N/A
1-1-2/M82	0.86314	N/A
12-2/M82	N/A	N/A
12-4/M82	1.04397	N/A
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	1.04021	N/A
4-1-1/M82	N/A	N/A
4-1/M82	1.29112	N/A
4-3-2/M82	0.77618	0.487
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	0.94986	1

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	0.68052	N/A
IL2-6/WTpooled	N/A	N/A
IL7-5/WTpooled	N/A	N/A
IL7-3/WTpooled	N/A	N/A
IL12-4/WTpooled	N/A	N/A
IL1-4/WTpooled	N/A	N/A
WT/WTpooled	N/A	N/A

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	N/A	N/A

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.94463	1
DC3000/delta hrp 6h	0.7896	0.95
DC3000/delta hrp 12h	1.16244	1
DC3000/delta hrp 24h	0.92523	0.662

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	N/A	N/A
DC3000 delta B/DC3000 delta AB	N/A	N/A

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	0.97461	1
Exp 36h	0.92991	0.82
Exp 60h	0.94874	0.855

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

hybridization	ratio	FDR (corrected p value)
self-self	1.29902	1
Var 0h	1.22727	0.936
Var 12h I row2-row1	2.0656	0.736
Var 12h NI row2-row1	3.50001	1
Var 36h I row2-row1	0.344	0.34
Var 36h NI row2-row1	0.83801	1
Var 60h I row2-row1	N/A	N/A
Var 60h NI row2-row1	0.72042	0.932
Time course 0hI-0hNI	1.13754	0.867
Time course 12hI-12hNI	1.76591	0.746
Time course 36hI-36hNI	0.83516	0.295
Time course 60hI-60hNI	0.65023	0.319

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)	1.0546	0.654
transgenic ySAMdc/azygous control (breaker)	1.14262	1
transgenic ySAMdc/azygous control (red)	1.00164	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.0552	0.204

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.98777	0.789

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.9433	1
Manapal/WT (break)	1.06871	1
Manapal/WT (red)	1.5629	0.413