Tomato Functional Genomics Database (TFGD)

Expression of 1-1-6.2.8.3

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.0854	0.798
27DAP/17DAP	1.02118	0.92
39DAP/27DAP	0.69848	0.346
41DAP/39DAP	1.16123	0.67
42DAP/41DAP	1.20606	0.772
43DAP/42DAP	0.90438	0.834
47DAP/43DAP	0.94382	0.724
52DAP/47DAP	1.02486	0.983
57DAP/52DAP	0.99489	0.983

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.06533	0.303
17DAP/reference	0.98742	0.701
27DAP/reference	1.00508	0.925
39DAP/reference	1.07669	0.286
41DAP/reference	0.93485	0.434
42DAP/reference	1.05957	0.05
43DAP/reference	1.04519	0.175
47DAP/reference	1.02799	0.365
52DAP/reference	1.03884	0.576
57DAP/reference	0.99773	0.767

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.92474	0.35
27DAP/17DAP	1.00137	1
39DAP/27DAP	1.07915	0.478
41DAP/39DAP	1.01524	1
42DAP/41DAP	1.05512	0.916
43DAP/42DAP	1.05608	0.162
47DAP/43DAP	1.00094	1
52DAP/47DAP	0.99467	0.962
57DAP/52DAP	1.01898	0.899
57DAP/7DAP	1.02001	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.97709	0.445
17DAP/reference	0.94407	0.049
27DAP/reference	1.01656	0.551
39DAP/reference	0.96751	0.198
41DAP/reference	0.9563	0.223
42DAP/reference	0.95871	0.055
43DAP/reference	0.95155	0.056
47DAP/reference	1.04293	0.791
52DAP/reference	0.96239	0.014
57DAP/reference	0.95396	0.061

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.02504	0.516
17DAP/reference	1.13888	0.136
27DAP/reference	1.00043	0.765
39DAP/reference	0.98254	0.497
41DAP/reference	0.98731	0.545
42DAP/reference	1.01721	0.987
43DAP/reference	1.09938	0.179
47DAP/reference	1.02525	0.426
52DAP/reference	0.97857	0.407
57DAP/reference	0.98707	0.68

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.96508	0.29
17DAP/reference	1.01697	0.887
27DAP/reference	0.96961	0.416
39DAP/reference	1.00145	1
41DAP/reference	1.01379	0.961
42DAP/reference	0.94658	0.108
43DAP/reference	0.92976	0.171
47DAP/reference	1.0681	0.163
52DAP/reference	0.96943	0.596
57DAP/reference	1.03019	0.758

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.02703	0.966
26DAP/20DAP	0.92681	0.512
34DAP/26DAP	0.98497	0.991
51DAP/34DAP	0.96501	0.727
52DAP/51DAP	1.01719	0.842
53DAP/52DAP	1.07103
55DAP/53DAP	1.00651	1
57DAP/55DAP	0.98756	0.93
62DAP/57DAP	1.09861	0.767
68DAP/62DAP	1.25683	0.491
68DAP/14DAP	1.51919	0.311

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.96047	0.547

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	0.86076	0.336
Mature Green Tomato/Ripe Tomato	1.07674	0.898
Immature Eggplant/Mature Eggplant	1.16545	0.165
Ripe Pepper/Ripe Tomato	0.77609	0.224
Mature Eggplant/Ripe Tomato	0.76672

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	0.99979	1
1-1-2/M82	1.01097	0.977
12-2/M82	0.96524	0.955
12-4/M82	0.97305	1
1-3/M82	0.97247	0.501
2-1-1/M82	0.96443
2-1/M82	0.97306	1
2-6/M82	0.99103	1
3-2/M82	1.00656	1
4-1-1/M82	1.18981	0.938
4-1/M82	0.71315	0.737
4-3-2/M82	1.01958	1
4-3/M82	0.98587	1
5-3/M82	1.01794	1
6-2/M82	1.01053	1
6-3/M82	1.02664	1
7-1/M82	1.11549	1
7-2/M82	0.96631	0.881
9-3-2/M82	0.90336	1

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	1.09533
IL7-3/WTpooled	0.81382
IL12-4/WTpooled	0.8072	0.71
IL1-4/WTpooled	1.1426	1
WT/WTpooled	0.43537	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	1.07823	1

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.08556	0.692
DC3000/delta hrp 6h	1.06103	1
DC3000/delta hrp 12h	1.031	1
DC3000/delta hrp 24h	0.97329	0.84

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.14463	0.16
DC3000 delta B/DC3000 delta AB	0.99294	1

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	1.06637	1
Exp 36h	0.95424	0.879
Exp 60h	1.07972	0.563

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

hybridization	ratio	FDR (corrected p value)
self-self	1.0117	1
Var 0h	0.64704	0.255
Var 12h I row2-row1	1.18421	0.224
Var 12h NI row2-row1	0.84887	0.488
Var 36h I row2-row1	1.13211	1
Var 36h NI row2-row1	0.87383	0.61
Var 60h I row2-row1	1.35194	0.562
Var 60h NI row2-row1	1.29764	0.904
Time course 0hI-0hNI	1.10516	0.799
Time course 12hI-12hNI	1.03466	0.816
Time course 36hI-36hNI	1.01478	0.799
Time course 60hI-60hNI	1.15825	0.019

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)	0.85615	0.314
transgenic ySAMdc/azygous control (breaker)	0.70546	0.137
transgenic ySAMdc/azygous control (red)	1.04771	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.0253	0.089

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.14902	0.277

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.60598	0.172
Manapal/WT (break)	0.88761	1
Manapal/WT (red)	1.20627	0.222