Tomato Functional Genomics Database (TFGD)

Expression of 1-1-6.1.10.18

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.84807	0.285
27DAP/17DAP	0.92044	0.843
39DAP/27DAP	1.63046	0.088
41DAP/39DAP	0.84306	0.412
42DAP/41DAP	1.01993	1
43DAP/42DAP	0.9203	0.776
47DAP/43DAP	0.75872	0.326
52DAP/47DAP	1.50183	0.238
57DAP/52DAP	1.2068	0.912

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.9964	0.756
17DAP/reference	0.92989	0.18
27DAP/reference	0.98262	0.623
39DAP/reference	0.96617	0.527
41DAP/reference	0.93746	0.267
42DAP/reference	0.98526	0.348
43DAP/reference	0.95705	0.331
47DAP/reference	0.97803	0.345
52DAP/reference	0.95837	0.25
57DAP/reference	0.94512	0.082

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.98623	0.763
27DAP/17DAP	1.10489	0.751
39DAP/27DAP	0.95516	0.759
41DAP/39DAP	1.03231	0.959
42DAP/41DAP	1.13749	0.893
43DAP/42DAP	0.90309	0.431
47DAP/43DAP	1.01405	0.969
52DAP/47DAP	1.03575	0.919
57DAP/52DAP	1.08588	0.507
57DAP/7DAP	0.92673	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.14708	0.193
17DAP/reference	1.0186	0.896
27DAP/reference	0.89133	0.017
39DAP/reference	0.92681	0.031
41DAP/reference	0.82165	0.028
42DAP/reference	0.96769	0.338
43DAP/reference	0.89793	0.151
47DAP/reference	1.1025	0.868
52DAP/reference	0.92131	0.126
57DAP/reference	0.96492	0.341

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.04947	0.47
17DAP/reference	1.05528	0.518
27DAP/reference	1.20533	0.052
39DAP/reference	1.06404	0.377
41DAP/reference	0.99083	0.557
42DAP/reference	0.88789	0.089
43DAP/reference	1.06275	0.719
47DAP/reference	0.95905	0.311
52DAP/reference	0.94597	0.06
57DAP/reference	0.97725	0.549

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.05268	0.493
17DAP/reference	0.99161	0.763
27DAP/reference	0.78092	0.102
39DAP/reference	0.93917	0.069
41DAP/reference	0.88317	0.031
42DAP/reference	0.93186	0.445
43DAP/reference	0.96525	0.468
47DAP/reference	0.99049	0.61
52DAP/reference	0.94916	0.573
57DAP/reference	1.31616	0.184

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.87711	0.773
26DAP/20DAP	2.37711	0.099
34DAP/26DAP	0.86052	0.627
51DAP/34DAP	1.09997	0.55
52DAP/51DAP	0.9776	1
53DAP/52DAP	0.96612	0.929
55DAP/53DAP	0.83055	0.022
57DAP/55DAP	1.15173	0.865
62DAP/57DAP	1.0603	0.833
68DAP/62DAP	1.27091	0.597
68DAP/14DAP	1.29439	0.594

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.90376	0.269

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	0.84757	0.343
Mature Green Tomato/Ripe Tomato	1.02697	1
Immature Eggplant/Mature Eggplant	1.23386	0.288
Ripe Pepper/Ripe Tomato	1.18257	1
Mature Eggplant/Ripe Tomato	1.16081	0.373

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	0.99796	0.961
1-1-2/M82	1.14391	1
12-2/M82	1.11604	1
12-4/M82	1.06419	1
1-3/M82	1.39171	0.479
2-1-1/M82	1.08002	0.689
2-1/M82	0.94346	1
2-6/M82	0.98588	1
3-2/M82	1.00552	1
4-1-1/M82	0.95877	1
4-1/M82	0.86856	0.737
4-3-2/M82	1.33894	0.508
4-3/M82	1.04745	1
5-3/M82	1.04356	1
6-2/M82	0.9719	1
6-3/M82	0.9384	1
7-1/M82	1.02223	1
7-2/M82	1.11393	0.282
9-3-2/M82	1.03696	1

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	1.60857	0.277
IL2-6/WTpooled	N/A	N/A
IL7-5/WTpooled	0.76408	1
IL7-3/WTpooled	N/A	N/A
IL12-4/WTpooled	1.13379	0.557
IL1-4/WTpooled	1.2857	1
WT/WTpooled	1.06765

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	1.29462	0.479

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.00888	1
DC3000/delta hrp 6h	0.84107	0.95
DC3000/delta hrp 12h	0.93055	1
DC3000/delta hrp 24h	1.0069	0.84

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.06132	0.121
DC3000 delta B/DC3000 delta AB	1.16763	0.302

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	0.81722	1
Exp 36h	1.77156	0.371
Exp 60h	1.55543	0.399

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

hybridization	ratio	FDR (corrected p value)
self-self	1.04292	1
Var 0h	1.06281	1
Var 12h I row2-row1	1.0907	0.736
Var 12h NI row2-row1	1.19087	0.649
Var 36h I row2-row1	1.0378	1
Var 36h NI row2-row1	1.00653	0.852
Var 60h I row2-row1	0.90498	0.582
Var 60h NI row2-row1	0.90741	0.977
Time course 0hI-0hNI	0.93646	0.519
Time course 12hI-12hNI	1.10386	0.162
Time course 36hI-36hNI	1.47807	0.006
Time course 60hI-60hNI	2.11409	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)	1.0534	0.748
transgenic ySAMdc/azygous control (breaker)	0.78597	0.137
transgenic ySAMdc/azygous control (red)	1.1836	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.11051	0.301

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.82096	0.238

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.09509	0.14
Manapal/WT (break)	1.15695	0.381
Manapal/WT (red)	1.05825	1