Tomato Functional Genomics Database (TFGD)

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Expression of 1-1-8.2.2.20

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.6284	0.05
27DAP/17DAP	1.3919	0.681
39DAP/27DAP	0.90346	0.583
41DAP/39DAP	1.01824	0.806
42DAP/41DAP	1.2792	0.419
43DAP/42DAP	1.29895	0.587
47DAP/43DAP	1.13011	0.965
52DAP/47DAP	0.91469	0.694
57DAP/52DAP	0.87749	0.833

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	2.64079	0.544
17DAP/reference	1.03744	0.813
27DAP/reference	0.8106	0.024
39DAP/reference	1.05615	0.474
41DAP/reference	1.3037	0.05
42DAP/reference	1.2803	0.011
43DAP/reference	1.01692	0.957
47DAP/reference	1.10876	0.284
52DAP/reference	0.84444	0.143
57DAP/reference	1.08543	0.355

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.33293	0.066
27DAP/17DAP	1.03719	0.909
39DAP/27DAP	1.14075	0.46
41DAP/39DAP	1.53978	0.837
42DAP/41DAP	1.10239	0.334
43DAP/42DAP	1.10226	0.478
47DAP/43DAP	0.89243	0.195
52DAP/47DAP	1.1765	0.471
57DAP/52DAP	0.95325	0.668
57DAP/7DAP	1.14917	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.8239	0.122
17DAP/reference	0.7691	0.024
27DAP/reference	0.83498	0.02
39DAP/reference	1.04608	0.436
41DAP/reference	0.7896	0.082
42DAP/reference	0.92168	0.304
43DAP/reference	0.92714	0.23
47DAP/reference	1.31921	0.133
52DAP/reference	0.77052	0.026
57DAP/reference	0.70952	0.007

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.77884	0.093
17DAP/reference	1.28671	0.223
27DAP/reference	1.04689	0.67
39DAP/reference	1.32745	0.213
41DAP/reference	1.4247	0.094
42DAP/reference	1.15948	0.61
43DAP/reference	0.91402	0.43
47DAP/reference	1.27994	0.008
52DAP/reference	1.16544	0.065
57DAP/reference	1.23685	1

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.78234	0.044
17DAP/reference	0.84733	0.217
27DAP/reference	0.83665	0.031
39DAP/reference	1.22651	0.406
41DAP/reference	1.0529	0.486
42DAP/reference	1.2379	0.163
43DAP/reference	1.08539	0.993
47DAP/reference	1.30462	0.543
52DAP/reference	1.57776	0.042
57DAP/reference	1.01584	1

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.06135	1
26DAP/20DAP	1.25547	0.518
34DAP/26DAP	1.28609	0.304
51DAP/34DAP	2.21975	0.032
52DAP/51DAP	1.00267	1
53DAP/52DAP	0.86223	0.301
55DAP/53DAP	1.01846	0.964
57DAP/55DAP	1.42278	0.188
62DAP/57DAP	N/A	N/A
68DAP/62DAP	0.88533	N/A
68DAP/14DAP	N/A	N/A

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.55483	0.021

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	N/A	N/A
Mature Green Tomato/Ripe Tomato	0.79419	0.165
Immature Eggplant/Mature Eggplant	N/A	N/A
Ripe Pepper/Ripe Tomato	2.95329	N/A
Mature Eggplant/Ripe Tomato	0.78242	0.234

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.28617	0.574
1-1-2/M82	1.06952	1
12-2/M82	0.94664	0.955
12-4/M82	0.89366	1
1-3/M82	1.18866	1
2-1-1/M82	0.57243	0.465
2-1/M82	1.75808	0.335
2-6/M82	1.21043	0.594
3-2/M82	N/A	N/A
4-1-1/M82	1.44147	0.968
4-1/M82	0.84237	N/A
4-3-2/M82	1.00198	N/A
4-3/M82	1.31735	N/A
5-3/M82	N/A	N/A
6-2/M82	1.11296	1
6-3/M82	1.16886	1
7-1/M82	0.58803	0.476
7-2/M82	1.78562	N/A
9-3-2/M82	1.34775	N/A

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	1.4244	0.365
IL2-6/WTpooled	0.68846	N/A
IL7-5/WTpooled	N/A	N/A
IL7-3/WTpooled	N/A	N/A
IL12-4/WTpooled	1.11249	1
IL1-4/WTpooled	1.56164	0.426
WT/WTpooled	1.00948	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	0.98952	1

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.05227	0.921
DC3000/delta hrp 6h	N/A	N/A
DC3000/delta hrp 12h	N/A	N/A
DC3000/delta hrp 24h	1.04398	0.69

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	0.78453	0.024
DC3000 delta B/DC3000 delta AB	0.91694	0.337

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	0.97351	1
Var 0h	0.98934	1
Var 12h I row2-row1	0.88368	0.357
Var 12h NI row2-row1	0.99773	1
Var 36h I row2-row1	1.18727	0.298
Var 36h NI row2-row1	1.19914	0.482
Var 60h I row2-row1	0.901	0.306
Var 60h NI row2-row1	1.0065	1
Time course 0hI-0hNI	0.98481	0.962
Time course 12hI-12hNI	0.94827	0.725
Time course 36hI-36hNI	1.00612	1
Time course 60hI-60hNI	0.51838	0.006

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)	1.3559	0.286
transgenic ySAMdc/azygous control (breaker)	1.05657	1
transgenic ySAMdc/azygous control (red)	0.91048	1

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	1.64324	0.239

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.15142	1
Manapal/WT (break)	1.25899	0.381
Manapal/WT (red)	N/A	N/A