Tomato Functional Genomics Database (TFGD)

Expression of 1-1-4.1.20.11

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.12986	0.904
27DAP/17DAP	1.48937	0.741
39DAP/27DAP	0.78115	0.458
41DAP/39DAP	1.65471	0.344
42DAP/41DAP	0.98046	1
43DAP/42DAP	1.08707	0.937
47DAP/43DAP	1.20225	0.965
52DAP/47DAP	1.28467	0.786
57DAP/52DAP	1.0492	1

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.05574	0.76
17DAP/reference	1.26133	0.057
27DAP/reference	1.07186	0.478
39DAP/reference	1.08243	0.445
41DAP/reference	1.21038	0.187
42DAP/reference	0.96336	0.287
43DAP/reference	1.06268	0.866
47DAP/reference	0.91815	0.161
52DAP/reference	0.96157	0.427
57DAP/reference	0.9287	0.235

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.94176	0.542
27DAP/17DAP	1.29121	0.573
39DAP/27DAP	0.95695	0.747
41DAP/39DAP	1.05572	0.88
42DAP/41DAP	0.87581	0.382
43DAP/42DAP	1.11833	0.513
47DAP/43DAP	1.22512	0.812
52DAP/47DAP	1.18741	0.58
57DAP/52DAP	2.00695	0.036
57DAP/7DAP	1.46368	0.204

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.97154	0.445
17DAP/reference	0.7086	0.011
27DAP/reference	0.79162	0.01
39DAP/reference	0.74588	0.011
41DAP/reference	0.76388	0.018
42DAP/reference	0.77435	0.012
43DAP/reference	0.84368	0.054
47DAP/reference	0.96998	0.504
52DAP/reference	0.82717	0.014
57DAP/reference	0.77002	0.008

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.99721	0.848
17DAP/reference	1.12013	0.098
27DAP/reference	0.91453	0.203
39DAP/reference	1.00688	0.661
41DAP/reference	0.97003	0.459
42DAP/reference	0.84524	0.135
43DAP/reference	1.04788	0.854
47DAP/reference	1.13263	0.159
52DAP/reference	1.01141	1
57DAP/reference	1.09354	0.229

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.0029	1
17DAP/reference	0.7894	0.071
27DAP/reference	0.73248	0.03
39DAP/reference	0.90185	0.069
41DAP/reference	0.76713	0.019
42DAP/reference	0.7676	0.017
43DAP/reference	0.75621	0.073
47DAP/reference	0.99025	0.558
52DAP/reference	0.96422	0.611
57DAP/reference	0.79751	0.08

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.93261	1
26DAP/20DAP	1.65339	0.18
34DAP/26DAP	0.77894	0.448
51DAP/34DAP	1.08837	0.746
52DAP/51DAP	0.99978	1
53DAP/52DAP	1.25745	0.537
55DAP/53DAP	1.09827	0.981
57DAP/55DAP	1.33434	0.626
62DAP/57DAP	1.099	1
68DAP/62DAP	0.84609	0.211
68DAP/14DAP	0.80485	1

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.85266	0.378

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	2.26871	0.058
Mature Green Tomato/Ripe Tomato	0.86882	0.377
Immature Eggplant/Mature Eggplant	0.83497
Ripe Pepper/Ripe Tomato	0.71514	1
Mature Eggplant/Ripe Tomato	0.65204	1

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	0.99931	1
1-1-2/M82	0.93584	1
12-2/M82	1.0147	1
12-4/M82	0.68912	0.272
1-3/M82	1.1348	0.479
2-1-1/M82	1.12501	0.764
2-1/M82	0.91111	0.74
2-6/M82	1.1323	0.695
3-2/M82	1.05625
4-1-1/M82	0.55663
4-1/M82	0.6491
4-3-2/M82	0.76044
4-3/M82	1.38815	0.268
5-3/M82	0.41152	0.369
6-2/M82	1.15511	1
6-3/M82	0.80918	1
7-1/M82	0.87017	0.803
7-2/M82	0.89376	0.881
9-3-2/M82	0.91384	1

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	0.98912	1
IL2-6/WTpooled	0.95812	1
IL7-5/WTpooled	1.09266	0.792
IL7-3/WTpooled	0.95218	1
IL12-4/WTpooled	1.02333	0.891
IL1-4/WTpooled	1.13554	1
WT/WTpooled	0.92508	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	1.27661	0.853

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.98916	1
DC3000/delta hrp 6h	1.09512	0.95
DC3000/delta hrp 12h	1.01473	1
DC3000/delta hrp 24h	1.04337	0.595

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	1.1378	1
Exp 36h	0.96929	0.943
Exp 60h	1.16535	0.399

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

hybridization	ratio	FDR (corrected p value)
self-self	0.95881	1
Var 0h	N/A	N/A
Var 12h I row2-row1	0.92942	0.856
Var 12h NI row2-row1	0.98779	1
Var 36h I row2-row1	0.85005	1
Var 36h NI row2-row1	0.54475	1
Var 60h I row2-row1	0.75997
Var 60h NI row2-row1	0.73857	1
Time course 0hI-0hNI	0.77703	0.347
Time course 12hI-12hNI	0.96377	0.82
Time course 36hI-36hNI	0.8991	0.29
Time course 60hI-60hNI	0.64036	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)	1.201	0.218
transgenic ySAMdc/azygous control (breaker)	0.80053	0.251
transgenic ySAMdc/azygous control (red)	0.82515	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.03084	0.495

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.06048	1

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.67838	0.172
Manapal/WT (break)	0.83332	1
Manapal/WT (red)	0.89731	0.216