Tomato Functional Genomics Database (TFGD)

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Expression of 1-1-1.4.2.15

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.13236	0.709
27DAP/17DAP	1.70998	0.613
39DAP/27DAP	0.83962	0.564
41DAP/39DAP	1.01624	1
42DAP/41DAP	1.18901	0.916
43DAP/42DAP	1.21198	0.894
47DAP/43DAP	1.20501	0.659
52DAP/47DAP	0.77552	0.461
57DAP/52DAP	1.08208	0.935

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.0193	0.9
17DAP/reference	1.05861	0.148
27DAP/reference	0.97335	0.406
39DAP/reference	1.00951	0.747
41DAP/reference	1.00494	1
42DAP/reference	0.98923	0.44
43DAP/reference	1.0389	0.425
47DAP/reference	0.95854	0.322
52DAP/reference	1.04033	0.354
57DAP/reference	1.0902	0.18

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.01309	0.899
27DAP/17DAP	0.97814	0.878
39DAP/27DAP	0.92358	0.419
41DAP/39DAP	1.14312	0.773
42DAP/41DAP	0.85489	0.276
43DAP/42DAP	1.18803	0.049
47DAP/43DAP	0.96934	0.855
52DAP/47DAP	1.01402	0.969
57DAP/52DAP	0.93585	0.596
57DAP/7DAP	1.47317	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.41452	0.069
17DAP/reference	1.25354	0.03
27DAP/reference	1.29251	0.131
39DAP/reference	1.40618	0.032
41DAP/reference	1.53193	0.015
42DAP/reference	1.46494	0.059
43DAP/reference	1.59348	0.029
47DAP/reference	1.03351	1
52DAP/reference	1.07527	0.636
57DAP/reference	1.21788	0.087

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.01018	0.943
17DAP/reference	1.05899	0.557
27DAP/reference	0.99557	0.686
39DAP/reference	1.02021	0.725
41DAP/reference	1.0411	0.688
42DAP/reference	0.94968	0.189
43DAP/reference	1.22834	0.457
47DAP/reference	0.98045	0.338
52DAP/reference	1.04793	0.24
57DAP/reference	1.14214	0.068

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.29973	0.034
17DAP/reference	1.16316	0.298
27DAP/reference	1.19939	0.115
39DAP/reference	1.03265	0.962
41DAP/reference	1.34605	0.125
42DAP/reference	1.1839	0.424
43DAP/reference	0.90805	0.206
47DAP/reference	0.98681	0.494
52DAP/reference	1.43646	0.448
57DAP/reference	0.96249	0.461

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.06165	0.966
26DAP/20DAP	1.14911	0.689
34DAP/26DAP	1.06018	0.819
51DAP/34DAP	1.45177	0.171
52DAP/51DAP	1.00357	1
53DAP/52DAP	1.37455	0.044
55DAP/53DAP	1.33428	0.244
57DAP/55DAP	0.9562	0.715
62DAP/57DAP	1.12772	0.569
68DAP/62DAP	1.0664	0.885
68DAP/14DAP	1.01323	1

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.58452	0.065

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	0.80506	0.377
Mature Green Tomato/Ripe Tomato	0.78859	0.411
Immature Eggplant/Mature Eggplant	1.24505	0.053
Ripe Pepper/Ripe Tomato	0.72327	N/A
Mature Eggplant/Ripe Tomato	0.98745	N/A

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	N/A	N/A
1-1-2/M82	N/A	N/A
12-2/M82	N/A	N/A
12-4/M82	N/A	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	N/A	N/A
4-1-1/M82	N/A	N/A
4-1/M82	N/A	N/A
4-3-2/M82	N/A	N/A
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	N/A	N/A

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	1.00285	1
IL2-6/WTpooled	1.00847	1
IL7-5/WTpooled	0.97237	1
IL7-3/WTpooled	0.96101	1
IL12-4/WTpooled	1.1031	0.673
IL1-4/WTpooled	0.93967	1
WT/WTpooled	1.01919	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	1.23229	0.148

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.98958	1
DC3000/delta hrp 6h	1.0115	1
DC3000/delta hrp 12h	1.08188	1
DC3000/delta hrp 24h	0.50623	0.034

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	0.55184	N/A

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	0.92159	1
Exp 36h	0.95865	0.879
Exp 60h	1.01504	1

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

hybridization	ratio	FDR (corrected p value)
self-self	N/A	N/A
Var 0h	1.03026	0.98
Var 12h I row2-row1	0.79225	0.39
Var 12h NI row2-row1	1.04211	N/A
Var 36h I row2-row1	0.75787	1
Var 36h NI row2-row1	0.96682	0.791
Var 60h I row2-row1	2.36428	1
Var 60h NI row2-row1	0.70192	0.904
Time course 0hI-0hNI	0.94392	0.522
Time course 12hI-12hNI	0.91184	0.303
Time course 36hI-36hNI	0.84824	0.047
Time course 60hI-60hNI	0.39083	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)	0.92679	0.295
transgenic ySAMdc/azygous control (breaker)	0.966	0.49
transgenic ySAMdc/azygous control (red)	1.12678	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.98089	0.186

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.82162	0.308

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.00552	1
Manapal/WT (break)	1.00228	1
Manapal/WT (red)	1.21274	1