Tomato Functional Genomics Database (TFGD)

Expression of 1-1-5.1.11.5

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.88647	0.503
27DAP/17DAP	1.25408	0.793
39DAP/27DAP	0.78852	0.495
41DAP/39DAP	1.42159	0.372
42DAP/41DAP	1.39564	0.681
43DAP/42DAP	0.74387	0.681
47DAP/43DAP	0.99424	0.851
52DAP/47DAP	2.04642	0.278
57DAP/52DAP	0.84596	0.759

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.02629	0.928
17DAP/reference	1.05043	0.258
27DAP/reference	1.01572	0.925
39DAP/reference	1.04736	0.326
41DAP/reference	1.04316	0.587
42DAP/reference	0.9974	0.567
43DAP/reference	1.02574	0.928
47DAP/reference	0.86311	0.011
52DAP/reference	0.73271	0.029
57DAP/reference	0.7134	0.018

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.92996	0.509
27DAP/17DAP	1.00988	1
39DAP/27DAP	1.09931	0.565
41DAP/39DAP	1.24228	0.781
42DAP/41DAP	0.96603	0.721
43DAP/42DAP	1.01735	1
47DAP/43DAP	1.05584	0.884
52DAP/47DAP	1.04634	0.915
57DAP/52DAP	1.07645	0.632
57DAP/7DAP	0.97661	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.80941	0.086
17DAP/reference	0.87331	0.025
27DAP/reference	0.73828	0.01
39DAP/reference	0.82672	0.012
41DAP/reference	0.88545	0.028
42DAP/reference	0.87143	0.038
43DAP/reference	0.84818	0.016
47DAP/reference	0.79928	0.05
52DAP/reference	0.87073	0.115
57DAP/reference	0.89574	0.093

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.08431	0.516
17DAP/reference	1.03561	0.904
27DAP/reference	0.80523	0.123
39DAP/reference	0.81218	0.095
41DAP/reference	0.82655	0.061
42DAP/reference	0.99689	0.655
43DAP/reference	1.08115	0.575
47DAP/reference	1.00725	1
52DAP/reference	0.91882	0.239
57DAP/reference	1.28377	0.14

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.86011	0.197
17DAP/reference	0.99769	0.751
27DAP/reference	0.75753	0.026
39DAP/reference	0.75688	0.031
41DAP/reference	0.80636	0.04
42DAP/reference	0.58102	0.02
43DAP/reference	0.64921	0.071
47DAP/reference	0.80778	0.231
52DAP/reference	0.79011	0.22
57DAP/reference	0.54194	0.026

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.00866	1
26DAP/20DAP	0.8616	0.317
34DAP/26DAP	1.12762	1
51DAP/34DAP	0.81996	0.083
52DAP/51DAP	0.94422	1
53DAP/52DAP	1.24939	0.274
55DAP/53DAP	1.13342	0.368
57DAP/55DAP	0.96584	0.817
62DAP/57DAP	1.15948	0.217
68DAP/62DAP	0.8853	0.314
68DAP/14DAP	0.86283	0.375

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.32425	0.663

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	N/A	N/A
Mature Green Tomato/Ripe Tomato	0.94263	0.569
Immature Eggplant/Mature Eggplant	N/A	N/A
Ripe Pepper/Ripe Tomato	1.53546
Mature Eggplant/Ripe Tomato	0.32808	0.234

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	0.86956	0.613
1-1-2/M82	0.94243	0.958
12-2/M82	1.05516	1
12-4/M82	1.036	1
1-3/M82	0.81261	0.441
2-1-1/M82	0.95648
2-1/M82	1.52483
2-6/M82	1.12437	0.695
3-2/M82	1.08368
4-1-1/M82	0.95981	1
4-1/M82	0.97078	1
4-3-2/M82	0.93027	1
4-3/M82	1.22126
5-3/M82	0.90136	1
6-2/M82	0.98544	1
6-3/M82	1.12591	1
7-1/M82	0.92846
7-2/M82	0.99852	1
9-3-2/M82	0.81545	1

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	1.02394	1
IL2-6/WTpooled	0.96095	1
IL7-5/WTpooled	0.81905	1
IL7-3/WTpooled	0.96106	1
IL12-4/WTpooled	1.03579	0.673
IL1-4/WTpooled	1.00761	1
WT/WTpooled	1.11878	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	1.10956	0.479

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.93337	0.941
DC3000/delta hrp 6h	N/A	N/A
DC3000/delta hrp 12h	1.1877	1
DC3000/delta hrp 24h	1.08814	0.221

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	0.83204	0.178

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	1.00867	1
Var 0h	0.98816	1
Var 12h I row2-row1	1.11647	0.348
Var 12h NI row2-row1	0.85248	0.494
Var 36h I row2-row1	0.86946	0.575
Var 36h NI row2-row1	0.92026	0.549
Var 60h I row2-row1	1.53492	1
Var 60h NI row2-row1	1.26175	0.904
Time course 0hI-0hNI	1.12937	0.63
Time course 12hI-12hNI	1.05491	0.724
Time course 36hI-36hNI	0.96096	0.396
Time course 60hI-60hNI	1.11119	0.115

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)	4.74563	0.212
transgenic ySAMdc/azygous control (breaker)	1.02505	1
transgenic ySAMdc/azygous control (red)	2.45146	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.00361	1

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.27479	0.238

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.006	1
Manapal/WT (break)	1.12827	1
Manapal/WT (red)	0.58263	0.199