Tomato Functional Genomics Database (TFGD)

Expression of 1-1-4.1.15.2

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.76591	0.119
27DAP/17DAP	0.96348	0.967
39DAP/27DAP	1.67133	0.168
41DAP/39DAP	0.76898	0.2
42DAP/41DAP	1.06611	1
43DAP/42DAP	0.95771	0.895
47DAP/43DAP	1.38592	0.633
52DAP/47DAP	0.93024	0.752
57DAP/52DAP	0.97207	0.957

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.0511	0.5
17DAP/reference	0.94309	0.158
27DAP/reference	0.95547	0.176
39DAP/reference	0.96856	0.37
41DAP/reference	0.95239	0.434
42DAP/reference	0.97824	0.242
43DAP/reference	0.97915	0.576
47DAP/reference	0.92917	0.116
52DAP/reference	0.83431	0.084
57DAP/reference	0.90836	0.118

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.56388	0.044
27DAP/17DAP	0.94403	0.821
39DAP/27DAP	1.68218	0.048
41DAP/39DAP	1.40827	0.146
42DAP/41DAP	1.05887	0.74
43DAP/42DAP	1.15429	0.162
47DAP/43DAP	1.1272	0.424
52DAP/47DAP	0.73596	0.078
57DAP/52DAP	0.67633	0.103
57DAP/7DAP	0.99211	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.06084	0.857
17DAP/reference	0.73015	0.02
27DAP/reference	0.87513	0.012
39DAP/reference	0.71541	0.012
41DAP/reference	0.71358	0.016
42DAP/reference	0.83636	0.021
43DAP/reference	0.75794	0.014
47DAP/reference	0.92684	0.383
52DAP/reference	0.68229	0.012
57DAP/reference	0.65739	0.006

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.16006	0.538
17DAP/reference	0.9011	0.062
27DAP/reference	0.91392	0.15
39DAP/reference	0.8069	0.024
41DAP/reference	0.81035	0.035
42DAP/reference	0.92064	0.15
43DAP/reference	1.07319	0.411
47DAP/reference	1.06845	0.205
52DAP/reference	0.88584	0.055
57DAP/reference	0.97137	0.408

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.20031	0.053
17DAP/reference	0.86389	0.286
27DAP/reference	0.5722	0.025
39DAP/reference	0.86728	0.05
41DAP/reference	0.81643	0.025
42DAP/reference	0.85516	0.071
43DAP/reference	0.7921	0.024
47DAP/reference	0.923	0.259
52DAP/reference	0.9355	0.472
57DAP/reference	0.72962	0.031

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.97419	1
26DAP/20DAP	0.78078	0.317
34DAP/26DAP	1.06686	1
51DAP/34DAP	1.1973	0.55
52DAP/51DAP	0.79487	0.151
53DAP/52DAP	1.29596	0.221
55DAP/53DAP	0.89659	0.163
57DAP/55DAP	1.48037	0.745
62DAP/57DAP	0.9099	0.28
68DAP/62DAP	0.76913	0.166
68DAP/14DAP	0.82094	0.375

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	2.61542	0.015

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	0.06866	0.039
Mature Green Tomato/Ripe Tomato	0.95082	0.611
Immature Eggplant/Mature Eggplant	7.32278	0.05
Ripe Pepper/Ripe Tomato	1.72581	0.258
Mature Eggplant/Ripe Tomato	0.43996	1

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	0.96076	0.944
1-1-2/M82	1.144	1
12-2/M82	1.25734	0.448
12-4/M82	1.20752	1
1-3/M82	1.24979	0.277
2-1-1/M82	1.23165	0.764
2-1/M82	0.84726	0.74
2-6/M82	1.10947	1
3-2/M82	0.96255	1
4-1-1/M82	1.36249	0.968
4-1/M82	1.43988	0.466
4-3-2/M82	1.22751	0.284
4-3/M82	0.99936	1
5-3/M82	0.99856	1
6-2/M82	1.10369	1
6-3/M82	0.99268	1
7-1/M82	0.90953	0.803
7-2/M82	1.00609	1
9-3-2/M82	1.55748	1

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	0.8095
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	1.23552
WT/WTpooled	0.88096	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	1.58619	0.853

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.97092	1
DC3000/delta hrp 6h	0.97311	0.95
DC3000/delta hrp 12h	1.04399	1
DC3000/delta hrp 24h	1.25653	0.058

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.4847
DC3000 delta B/DC3000 delta AB	0.96232	1

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	1.34187	1
Exp 36h	2.40624	0.489
Exp 60h	1.67654	0.227

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

hybridization	ratio	FDR (corrected p value)
self-self	0.99252	1
Var 0h	1.19587	0.936
Var 12h I row2-row1	1.32938	0.196
Var 12h NI row2-row1	0.86677	0.343
Var 36h I row2-row1	1.28676	0.41
Var 36h NI row2-row1	0.88907	0.478
Var 60h I row2-row1	1.07794	0.543
Var 60h NI row2-row1	1.0249	1
Time course 0hI-0hNI	1.06572	0.662
Time course 12hI-12hNI	3.00976	0.008
Time course 36hI-36hNI	3.42524	0.009
Time course 60hI-60hNI	10.5041	0.008

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)	0.81463	0.338
transgenic ySAMdc/azygous control (breaker)	1.14068	1
transgenic ySAMdc/azygous control (red)	0.90779	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.04882	0.077

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.35402	1

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.80584	1
Manapal/WT (break)	0.72726	1
Manapal/WT (red)	0.85639	0.315