Tomato Functional Genomics Database (TFGD)

Expression of 1-1-4.2.16.5

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.0618	0.961
27DAP/17DAP	1.05626	0.92
39DAP/27DAP	1.46346	0.268
41DAP/39DAP	1.43335	0.224
42DAP/41DAP	1.09823	0.986
43DAP/42DAP	0.95707	0.9
47DAP/43DAP	0.74611	0.236
52DAP/47DAP	1.2557	0.767
57DAP/52DAP	1.08971	0.977

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.03788	0.5
17DAP/reference	1.04001	0.492
27DAP/reference	1.00207	1
39DAP/reference	1.04423	0.27
41DAP/reference	1.08471	0.451
42DAP/reference	1.04867	0.093
43DAP/reference	1.04857	0.252
47DAP/reference	1.04394	0.284
52DAP/reference	0.97131	0.438
57DAP/reference	1.11505	0.025

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.21612	0.642
27DAP/17DAP	1.49558	0.506
39DAP/27DAP	1.43494	0.514
41DAP/39DAP	0.89949	0.98
42DAP/41DAP	1.09784	1
43DAP/42DAP	1.17096	0.382
47DAP/43DAP	0.88361	0.373
52DAP/47DAP	1.30203	0.367
57DAP/52DAP	1.56363	0.076
57DAP/7DAP	3.18875

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.04531	0.501
17DAP/reference	0.85629	0.064
27DAP/reference	0.84586	0.011
39DAP/reference	0.82467	0.017
41DAP/reference	0.82483	0.025
42DAP/reference	0.89575	0.136
43DAP/reference	0.89519	0.095
47DAP/reference	0.96507	0.383
52DAP/reference	0.85679	0.023
57DAP/reference	0.79718	0.008

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.96355	0.487
17DAP/reference	0.97764	0.51
27DAP/reference	0.91804	0.123
39DAP/reference	1.06804	0.529
41DAP/reference	0.9526	0.094
42DAP/reference	1.03642	0.664
43DAP/reference	0.97267	0.569
47DAP/reference	1.02458	0.527
52DAP/reference	1.0323	0.24
57DAP/reference	1.05797	0.538

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.92306	0.119
17DAP/reference	0.91271	0.305
27DAP/reference	0.81229	0.06
39DAP/reference	0.88315	0.05
41DAP/reference	0.85353	0.07
42DAP/reference	0.87062	0.087
43DAP/reference	0.89265	0.179
47DAP/reference	1.04322	0.324
52DAP/reference	0.83172	0.184
57DAP/reference	1.00297	0.814

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.03894	0.966
26DAP/20DAP	0.79802	0.244
34DAP/26DAP	1.45029	1
51DAP/34DAP	N/A	N/A
52DAP/51DAP	0.99453	1
53DAP/52DAP	1.45918	0.552
55DAP/53DAP	1.18213	0.722
57DAP/55DAP	0.98152	0.691
62DAP/57DAP	1.38509	0.515
68DAP/62DAP	1.00701	1
68DAP/14DAP	0.89477	1

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.9078	0.443

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	1.10902	0.176
Mature Green Tomato/Ripe Tomato	N/A	N/A
Immature Eggplant/Mature Eggplant	0.76554	0.223
Ripe Pepper/Ripe Tomato	0.54939	1
Mature Eggplant/Ripe Tomato	0.10784	0.234

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.02866	0.742
1-1-2/M82	1.21266
12-2/M82	1.40949
12-4/M82	0.88575	0.274
1-3/M82	0.59639
2-1-1/M82	N/A	N/A
2-1/M82	N/A	N/A
2-6/M82	1.07065	0.695
3-2/M82	N/A	N/A
4-1-1/M82	1.01556	1
4-1/M82	1.11947
4-3-2/M82	0.83061
4-3/M82	1.33499	0.268
5-3/M82	0.94865	1
6-2/M82	N/A	N/A
6-3/M82	N/A	N/A
7-1/M82	N/A	N/A
7-2/M82	0.94603	0.599
9-3-2/M82	N/A	N/A

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	N/A	N/A
IL2-6/WTpooled	N/A	N/A
IL7-5/WTpooled	N/A	N/A
IL7-3/WTpooled	N/A	N/A
IL12-4/WTpooled	0.7291
IL1-4/WTpooled	N/A	N/A
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	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	0.96804	1
DC3000/delta hrp 6h	1.17514	1
DC3000/delta hrp 12h	1.18899	1
DC3000/delta hrp 24h	1.07433	0.62

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	1.34243	1
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	0.87698	1
Var 0h	0.61618	0.933
Var 12h I row2-row1	1.00496	1
Var 12h NI row2-row1	0.84246	0.443
Var 36h I row2-row1	0.90671	0.805
Var 36h NI row2-row1	1.06735
Var 60h I row2-row1	0.99692	0.582
Var 60h NI row2-row1	1.23755	0.904
Time course 0hI-0hNI	1.01785	0.867
Time course 12hI-12hNI	1.24613	1
Time course 36hI-36hNI	0.91941	0.183
Time course 60hI-60hNI	0.74374	0.026

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)	1.36086	0.286
transgenic ySAMdc/azygous control (breaker)	1.63164	0.248
transgenic ySAMdc/azygous control (red)	1.36055	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.98083	0.343

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.97996	0.59

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.56356	0.172
Manapal/WT (break)	0.86981	1
Manapal/WT (red)	0.789	0.229