Tomato Functional Genomics Database (TFGD)

Expression of 1-1-5.1.20.7

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.92407	0.596
27DAP/17DAP	1.02841	1
39DAP/27DAP	1.19909	0.626
41DAP/39DAP	0.88153	0.593
42DAP/41DAP	0.76407	0.774
43DAP/42DAP	1.08886	1
47DAP/43DAP	0.98634	0.913
52DAP/47DAP	0.89269	0.693
57DAP/52DAP	0.96269	0.94

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.86053	0.029
17DAP/reference	0.93416	0.298
27DAP/reference	1.01644	1
39DAP/reference	0.94373	0.554
41DAP/reference	0.86065	0.114
42DAP/reference	0.89954	0.014
43DAP/reference	0.96101	0.464
47DAP/reference	0.91748	0.065
52DAP/reference	0.90073	0.139
57DAP/reference	1.12516	0.063

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.00315	0.871
27DAP/17DAP	1.43605	0.233
39DAP/27DAP	1.09308	0.596
41DAP/39DAP	0.92696	0.793
42DAP/41DAP	1.11361	0.916
43DAP/42DAP	0.83174	0.189
47DAP/43DAP	1.03405	0.963
52DAP/47DAP	1.0365	0.939
57DAP/52DAP	0.75352	0.29
57DAP/7DAP	1.86208	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.89004	0.146
17DAP/reference	0.85318	0.124
27DAP/reference	0.82582	0.023
39DAP/reference	0.79985	0.039
41DAP/reference	1.06006	0.565
42DAP/reference	0.75816	0.02
43DAP/reference	0.80627	0.033
47DAP/reference	0.84928	0.066
52DAP/reference	0.85718	0.072
57DAP/reference	1.09297	0.907

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.82353	0.064
17DAP/reference	0.83479	0.036
27DAP/reference	0.70852	0.014
39DAP/reference	0.86526	0.147
41DAP/reference	0.89047	0.121
42DAP/reference	1.21089	1
43DAP/reference	0.8865	0.132
47DAP/reference	0.7854	0.019
52DAP/reference	0.88481	0.171
57DAP/reference	0.86354	0.107

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.99518	0.699
17DAP/reference	0.75778	0.024
27DAP/reference	0.9551	0.49
39DAP/reference	0.87272	0.133
41DAP/reference	0.90558	0.132
42DAP/reference	1.16662	0.287
43DAP/reference	1.23422	0.547
47DAP/reference	0.80886	0.031
52DAP/reference	1.49963	0.179
57DAP/reference	0.86351	0.152

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.75469	0.981
26DAP/20DAP	1.19559	0.534
34DAP/26DAP	1.01747	1
51DAP/34DAP	1.17784	0.207
52DAP/51DAP	1.08966	0.638
53DAP/52DAP	1.08548	0.819
55DAP/53DAP	0.77798	0.159
57DAP/55DAP	1.27925	0.793
62DAP/57DAP	1.04499	1
68DAP/62DAP	1.60956	0.033
68DAP/14DAP	1.95449	0.061

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.69766	0.068

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	1.12228	0.426
Mature Green Tomato/Ripe Tomato	1.7102	0.209
Immature Eggplant/Mature Eggplant	1.42146	0.053
Ripe Pepper/Ripe Tomato	3.73006	0.258
Mature Eggplant/Ripe Tomato	1.32944	0.373

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	0.69103	0.934
1-1-2/M82	0.90379	1
12-2/M82	N/A	N/A
12-4/M82	1.00961	1
1-3/M82	1.15826
2-1-1/M82	1.00003
2-1/M82	N/A	N/A
2-6/M82	0.80663
3-2/M82	0.94905
4-1-1/M82	N/A	N/A
4-1/M82	1.13409	1
4-3-2/M82	1.20745
4-3/M82	1.01637	1
5-3/M82	1.07072	0.37
6-2/M82	1.03626
6-3/M82	1.32576	1
7-1/M82	1.2359	0.598
7-2/M82	0.98925	1
9-3-2/M82	1.07716	1

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	1.08583	0.365
IL2-6/WTpooled	0.87429
IL7-5/WTpooled	0.94123	1
IL7-3/WTpooled	N/A	N/A
IL12-4/WTpooled	1.13221	0.785
IL1-4/WTpooled	0.97818	1
WT/WTpooled	N/A	N/A

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	1.51281	0.699

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.01137	1
DC3000/delta hrp 6h	0.99214	0.95
DC3000/delta hrp 12h	1.03959	1
DC3000/delta hrp 24h	0.924	0.662

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.52451
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	0.97304	1
Exp 36h	1.11314	1
Exp 60h	1.23374	0.563

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

hybridization	ratio	FDR (corrected p value)
self-self	1.01688	1
Var 0h	N/A	N/A
Var 12h I row2-row1	1.07469	0.613
Var 12h NI row2-row1	1.24793	0.34
Var 36h I row2-row1	1.08827	0.601
Var 36h NI row2-row1	0.62935	0.852
Var 60h I row2-row1	0.73553	0.439
Var 60h NI row2-row1	0.84699	0.818
Time course 0hI-0hNI	1.00766	0.867
Time course 12hI-12hNI	1.24345	0.032
Time course 36hI-36hNI	1.51585	0.008
Time course 60hI-60hNI	2.05006	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)	0.92236	0.377
transgenic ySAMdc/azygous control (breaker)	0.69205	0.137
transgenic ySAMdc/azygous control (red)	1.00205	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.14415	0.086

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.78102	0.241

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.89165	1
Manapal/WT (break)	0.63569	0.299
Manapal/WT (red)	1.10084	1