Tomato Functional Genomics Database (TFGD)

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Expression of 1-1-7.2.2.20

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.18804	0.827
27DAP/17DAP	1.28232	0.787
39DAP/27DAP	1.25691	0.466
41DAP/39DAP	0.96173	0.706
42DAP/41DAP	1.7362	0.903
43DAP/42DAP	1.19554	1
47DAP/43DAP	1.19524	0.926
52DAP/47DAP	1.36426	0.926
57DAP/52DAP	1.08736	0.983

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.28605	0.139
17DAP/reference	1.0215	0.528
27DAP/reference	1.16498	0.264
39DAP/reference	1.21116	0.368
41DAP/reference	1.13363	0.221
42DAP/reference	1.1721	0.009
43DAP/reference	1.55705	0.189
47DAP/reference	1.24443	0.013
52DAP/reference	0.88825	N/A
57DAP/reference	1.1001	0.202

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.05336	0.923
27DAP/17DAP	1.18801	0.969
39DAP/27DAP	1.25222	0.615
41DAP/39DAP	1.22055	0.781
42DAP/41DAP	1.37719	0.46
43DAP/42DAP	1.15392	0.746
47DAP/43DAP	1.36815	0.133
52DAP/47DAP	0.67756	0.575
57DAP/52DAP	0.76504	0.461
57DAP/7DAP	0.96549	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.22884	0.876
17DAP/reference	0.88889	0.192
27DAP/reference	1.09306	0.974
39DAP/reference	0.91939	0.198
41DAP/reference	1.00422	0.848
42DAP/reference	0.89632	0.304
43DAP/reference	0.91284	0.175
47DAP/reference	1.19257	0.022
52DAP/reference	0.97193	0.332
57DAP/reference	1.0334	0.907

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.50008	0.456
17DAP/reference	0.72769	N/A
27DAP/reference	0.67476	0.139
39DAP/reference	0.72296	0.122
41DAP/reference	1.36846	N/A
42DAP/reference	N/A	N/A
43DAP/reference	0.8782	0.507
47DAP/reference	1.15265	N/A
52DAP/reference	N/A	N/A
57DAP/reference	N/A	N/A

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.38485	0.545
17DAP/reference	0.90089	0.727
27DAP/reference	N/A	N/A
39DAP/reference	1.64612	0.285
41DAP/reference	1.32145	0.043
42DAP/reference	1.55229	0.063
43DAP/reference	1.09706	0.541
47DAP/reference	1.89568	0.006
52DAP/reference	1.2013	0.77
57DAP/reference	2.20461	0.109

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.03447	N/A
26DAP/20DAP	0.66304	0.512
34DAP/26DAP	0.82612	N/A
51DAP/34DAP	1.29612	0.829
52DAP/51DAP	1.02672	N/A
53DAP/52DAP	2.0441	0.845
55DAP/53DAP	1.82336	0.064
57DAP/55DAP	0.83858	0.587
62DAP/57DAP	0.23614	N/A
68DAP/62DAP	N/A	N/A
68DAP/14DAP	1.11288	N/A

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.61663	0.151

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	N/A	N/A
Mature Green Tomato/Ripe Tomato	N/A	N/A
Immature Eggplant/Mature Eggplant	0.40534	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	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	0.86538	N/A
IL2-6/WTpooled	0.77532	1
IL7-5/WTpooled	0.4795	N/A
IL7-3/WTpooled	0.96592	0.418
IL12-4/WTpooled	1.3434	0.737
IL1-4/WTpooled	0.87208	0.402
WT/WTpooled	0.95355	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	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	N/A	N/A
DC3000/delta hrp 6h	N/A	N/A
DC3000/delta hrp 12h	N/A	N/A
DC3000/delta hrp 24h	N/A	N/A

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	N/A	N/A
Exp 36h	N/A	N/A
Exp 60h	N/A	N/A

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	N/A	N/A
Var 12h I row2-row1	N/A	N/A
Var 12h NI row2-row1	N/A	N/A
Var 36h I row2-row1	N/A	N/A
Var 36h NI row2-row1	0.6745	N/A
Var 60h I row2-row1	N/A	N/A
Var 60h NI row2-row1	N/A	N/A
Time course 0hI-0hNI	N/A	N/A
Time course 12hI-12hNI	N/A	N/A
Time course 36hI-36hNI	N/A	N/A
Time course 60hI-60hNI	N/A	N/A

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)	N/A	N/A
transgenic ySAMdc/azygous control (breaker)	N/A	N/A
transgenic ySAMdc/azygous control (red)	N/A	N/A

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	N/A	N/A

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	N/A	N/A

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	N/A	N/A
Manapal/WT (break)	N/A	N/A
Manapal/WT (red)	N/A	N/A