Tomato Functional Genomics Database (TFGD)

Expression of 1-1-8.3.10.5

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.95297	0.671
27DAP/17DAP	1.08187	0.88
39DAP/27DAP	1.08776	0.992
41DAP/39DAP	1.19523	0.298
42DAP/41DAP	0.87953	1
43DAP/42DAP	1.0382	0.937
47DAP/43DAP	1.01219	0.884
52DAP/47DAP	1.54687	0.635
57DAP/52DAP	1.0427	1

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.88143	0.182
17DAP/reference	1.10934	0.185
27DAP/reference	0.96853	0.61
39DAP/reference	1.08562	0.224
41DAP/reference	1.21294	0.158
42DAP/reference	0.90197	0.04
43DAP/reference	0.97652	0.691
47DAP/reference	0.88889	0.055
52DAP/reference	0.89943	0.275
57DAP/reference	0.89497	0.059

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.85717	0.245
27DAP/17DAP	1.06041	0.893
39DAP/27DAP	1.00706	0.874
41DAP/39DAP	0.99909	1
42DAP/41DAP	1.03564	0.999
43DAP/42DAP	1.16651	0.094
47DAP/43DAP	1.04664	0.901
52DAP/47DAP	0.7623	0.18
57DAP/52DAP	1.07459	0.638
57DAP/7DAP	1.10069	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.88981	0.183
17DAP/reference	0.95118	0.295
27DAP/reference	1.02116	0.974
39DAP/reference	0.84008	0.095
41DAP/reference	0.85467	0.052
42DAP/reference	0.79694	0.055
43DAP/reference	0.83966	0.072
47DAP/reference	1.10065	0.804
52DAP/reference	0.83109	0.061
57DAP/reference	0.75289	0.009

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.18136	0.114
17DAP/reference	1.01518	0.874
27DAP/reference	1.01081	1
39DAP/reference	0.86387	0.208
41DAP/reference	0.92569	0.242
42DAP/reference	0.94579	0.355
43DAP/reference	1.50034	0.035
47DAP/reference	1.09224	0.176
52DAP/reference	0.84116	0.111
57DAP/reference	1.13179	0.688

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.85735	0.098
17DAP/reference	0.97524	0.668
27DAP/reference	1.12822	0.188
39DAP/reference	1.02836	0.752
41DAP/reference	1.1791	0.425
42DAP/reference	0.92931	0.445
43DAP/reference	0.7804	0.032
47DAP/reference	0.98949	0.61
52DAP/reference	0.95728	0.538
57DAP/reference	0.72888	0.016

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.79128	0.611
26DAP/20DAP	1.13516	0.567
34DAP/26DAP	1.08802	1
51DAP/34DAP	1.4039	0.06
52DAP/51DAP	1.10843	0.792
53DAP/52DAP	1.00044	1
55DAP/53DAP	1.05932	0.904
57DAP/55DAP	0.84903	0.222
62DAP/57DAP	1.21263	0.8
68DAP/62DAP	0.83418	0.464
68DAP/14DAP	1.14954	0.541

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.83602	0.014

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	0.34678	0.073
Mature Green Tomato/Ripe Tomato	0.97895	0.715
Immature Eggplant/Mature Eggplant	0.88846	0.493
Ripe Pepper/Ripe Tomato	3.3442	0.256
Mature Eggplant/Ripe Tomato	1.56539	0.26

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	0.9017
1-1-2/M82	1.11583
12-2/M82	1.01006
12-4/M82	0.96202	1
1-3/M82	N/A	N/A
2-1-1/M82	N/A	N/A
2-1/M82	N/A	N/A
2-6/M82	1.01028
3-2/M82	1.14829	0.388
4-1-1/M82	1.70384
4-1/M82	0.85262
4-3-2/M82	1.10331	0.508
4-3/M82	N/A	N/A
5-3/M82	0.88072	0.49
6-2/M82	0.63471
6-3/M82	0.8147
7-1/M82	0.75272	0.443
7-2/M82	N/A	N/A
9-3-2/M82	1.04454	1

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	N/A	N/A
IL2-6/WTpooled	0.98314	1
IL7-5/WTpooled	0.64588
IL7-3/WTpooled	1.09853	1
IL12-4/WTpooled	0.87307	1
IL1-4/WTpooled	1.01714	1
WT/WTpooled	0.99029	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	1.04147	0.853

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.26802	0.894
DC3000/delta hrp 6h	0.92219	0.95
DC3000/delta hrp 12h	1.15717	1
DC3000/delta hrp 24h	1.04472	0.673

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.41593
DC3000 delta B/DC3000 delta AB	0.95817	0.766

Experiment: Matt's wild cherry tomato vs. Phytophthora infestans

hybridization	ratio	FDR (corrected p value)
Exp 12h	0.80134	1
Exp 36h	1.94004	1
Exp 60h	1.42514	1

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

hybridization	ratio	FDR (corrected p value)
self-self	0.98222	1
Var 0h	1.20532	0.98
Var 12h I row2-row1	0.97949	0.948
Var 12h NI row2-row1	1.10136	0.649
Var 36h I row2-row1	1.12591	0.489
Var 36h NI row2-row1	1.01253	1
Var 60h I row2-row1	0.87711	0.832
Var 60h NI row2-row1	0.91253	0.335
Time course 0hI-0hNI	0.96026	0.765
Time course 12hI-12hNI	1.02267	0.773
Time course 36hI-36hNI	1.2072	0.016
Time course 60hI-60hNI	1.44359	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)	1.15951	0.261
transgenic ySAMdc/azygous control (breaker)	0.93631	1
transgenic ySAMdc/azygous control (red)	0.91235	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.03603	0.148

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.93863	0.238

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.00689	1
Manapal/WT (break)	1.08337	0.381
Manapal/WT (red)	1.06467	1