Tomato Functional Genomics Database (TFGD)

Expression of 1-1-6.4.18.7

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.0124	0.847
27DAP/17DAP	1.20903	0.873
39DAP/27DAP	1.1628	0.946
41DAP/39DAP	1.17891	0.859
42DAP/41DAP	0.96612	1
43DAP/42DAP	1.05459	1
47DAP/43DAP	1.36975	0.377
52DAP/47DAP	0.96951	0.823
57DAP/52DAP	0.90851	0.912

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.80956	0.03
17DAP/reference	0.88705	0.026
27DAP/reference	0.9111	0.119
39DAP/reference	0.91309	0.298
41DAP/reference	0.79585	0.031
42DAP/reference	0.87193	0.007
43DAP/reference	0.90162	0.098
47DAP/reference	0.94838	0.207
52DAP/reference	0.92933	0.183
57DAP/reference	0.92791	0.21

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	5.36699	0.34
27DAP/17DAP	1.24601	0.863
39DAP/27DAP	0.64987	0.076
41DAP/39DAP	1.26768	0.853
42DAP/41DAP	1.05999	1
43DAP/42DAP	1.4081	0.351
47DAP/43DAP	0.84881	0.457
52DAP/47DAP	0.96612	0.901
57DAP/52DAP	0.99895	0.838
57DAP/7DAP	1.17123	0.207

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.83827	0.086
17DAP/reference	1.12101	0.084
27DAP/reference	1.01396	0.8
39DAP/reference	0.95553	0.474
41DAP/reference	0.99053	0.589
42DAP/reference	0.84235	0.082
43DAP/reference	0.96112	0.555
47DAP/reference	1.0717	0.67
52DAP/reference	1.05487	0.832
57DAP/reference	1.18492	0.094

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.91437	0.399
17DAP/reference	0.76448	0.005
27DAP/reference	0.85466	0.16
39DAP/reference	0.89331	0.14
41DAP/reference	0.96732	0.451
42DAP/reference	0.88363	0.169
43DAP/reference	0.91659	0.292
47DAP/reference	0.93353	0.201
52DAP/reference	0.86079	0.025
57DAP/reference	0.8088	0.04

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.96892	0.455
17DAP/reference	1.11203	0.814
27DAP/reference	1.09542	0.721
39DAP/reference	1.11621	0.377
41DAP/reference	1.00517	0.754
42DAP/reference	0.96318	0.552
43DAP/reference	1.23075	0.105
47DAP/reference	0.96063	0.357
52DAP/reference	1.02194	0.965
57DAP/reference	0.91919	0.247

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.06081	0.966
26DAP/20DAP	1.06811
34DAP/26DAP	1.44263	0.819
51DAP/34DAP	0.8025	0.341
52DAP/51DAP	1.11252	0.783
53DAP/52DAP	0.98096	0.824
55DAP/53DAP	1.19906	0.712
57DAP/55DAP	1.20526	0.927
62DAP/57DAP	0.83904	0.681
68DAP/62DAP	1.3228	0.754
68DAP/14DAP	1.23597	0.541

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.16671	1

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	N/A	N/A
Mature Green Tomato/Ripe Tomato	0.78061	0.256
Immature Eggplant/Mature Eggplant	3.31699	0.05
Ripe Pepper/Ripe Tomato	0.29647	0.224
Mature Eggplant/Ripe Tomato	0.71592	1

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.10088	0.536
1-1-2/M82	1.03574	1
12-2/M82	1.13869
12-4/M82	0.99137	1
1-3/M82	0.77705
2-1-1/M82	1.09969	0.342
2-1/M82	N/A	N/A
2-6/M82	1.16776	0.594
3-2/M82	1.26345
4-1-1/M82	1.04482
4-1/M82	N/A	N/A
4-3-2/M82	N/A	N/A
4-3/M82	0.89026	0.72
5-3/M82	0.86081	0.364
6-2/M82	0.78306
6-3/M82	0.83554
7-1/M82	0.74394
7-2/M82	1.10593	1
9-3-2/M82	1.03462

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	0.95067
IL2-6/WTpooled	1.38844	0.46
IL7-5/WTpooled	1.09847	1
IL7-3/WTpooled	1.06738	1
IL12-4/WTpooled	1.08418	0.839
IL1-4/WTpooled	1.31954	0.426
WT/WTpooled	0.98447	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	1.14739

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.09346	0.921
DC3000/delta hrp 6h	N/A	N/A
DC3000/delta hrp 12h	1.14906	1
DC3000/delta hrp 24h	1.11521	0.567

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	0.70468	0.265
Exp 36h	0.94855	0.943
Exp 60h	1.33953	1

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

hybridization	ratio	FDR (corrected p value)
self-self	1.21774	1
Var 0h	0.84588	0.332
Var 12h I row2-row1	1.1443	0.692
Var 12h NI row2-row1	1.56215
Var 36h I row2-row1	0.70386
Var 36h NI row2-row1	1.81828
Var 60h I row2-row1	1.06912	1
Var 60h NI row2-row1	1.01996
Time course 0hI-0hNI	0.72501	0.334
Time course 12hI-12hNI	0.7003	0.892
Time course 36hI-36hNI	0.62599	0.255
Time course 60hI-60hNI	2.60421	0.137

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)	1.33584	0.305
transgenic ySAMdc/azygous control (breaker)	1.20373	0.248
transgenic ySAMdc/azygous control (red)	1.22182	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.0024	0.811

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.14878	1

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)	1.07156	1
Manapal/WT (red)	0.76094	0.199