Tomato Functional Genomics Database (TFGD)

Expression of 1-1-1.2.19.3

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.00218	0.891
27DAP/17DAP	1.52976	0.742
39DAP/27DAP	0.97384	0.719
41DAP/39DAP	1.22673	0.569
42DAP/41DAP	1.01239	1
43DAP/42DAP	1.02765	1
47DAP/43DAP	1.46894	0.555
52DAP/47DAP	0.8332	0.534
57DAP/52DAP	1.08879	0.98

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.01343	0.872
17DAP/reference	1.02221	0.508
27DAP/reference	1.04582	0.478
39DAP/reference	1.02775	0.153
41DAP/reference	1.07643	0.203
42DAP/reference	0.98712	0.413
43DAP/reference	1.03616	0.36
47DAP/reference	1.00308	1
52DAP/reference	0.95435	0.21
57DAP/reference	0.91437	0.118

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.0554	0.841
27DAP/17DAP	1.01979	0.942
39DAP/27DAP	1.08118	0.519
41DAP/39DAP	0.91724	0.764
42DAP/41DAP	0.97478	0.772
43DAP/42DAP	1.03585	0.554
47DAP/43DAP	1.00479	0.997
52DAP/47DAP	0.99157	0.941
57DAP/52DAP	0.96929	0.7
57DAP/7DAP	0.83778	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.953	0.246
17DAP/reference	0.96574	0.338
27DAP/reference	0.92054	0.02
39DAP/reference	1.05205	0.126
41DAP/reference	1.00121	0.848
42DAP/reference	1.03624	0.686
43DAP/reference	1.0011	0.802
47DAP/reference	0.98312	0.504
52DAP/reference	0.99769	0.802
57DAP/reference	0.98543	0.458

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.0031	0.965
17DAP/reference	0.98593	0.474
27DAP/reference	0.96391	0.407
39DAP/reference	0.96577	0.314
41DAP/reference	0.84656	0.066
42DAP/reference	0.9031	0.212
43DAP/reference	1.02998	0.655
47DAP/reference	0.98816	0.559
52DAP/reference	1.01918	0.882
57DAP/reference	1.01216	1

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.8975	0.034
17DAP/reference	0.9815	0.647
27DAP/reference	0.94821	0.113
39DAP/reference	0.93322	0.101
41DAP/reference	0.9806	0.512
42DAP/reference	0.85728	0.059
43DAP/reference	0.95986	0.319
47DAP/reference	0.92736	0.286
52DAP/reference	0.89519	0.25
57DAP/reference	0.82765	0.047

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.03419	0.966
26DAP/20DAP	0.94647	1
34DAP/26DAP	0.85395	0.28
51DAP/34DAP	0.976	0.816
52DAP/51DAP	0.9579	1
53DAP/52DAP	1.05311	0.738
55DAP/53DAP	0.99107	0.886
57DAP/55DAP	1.13727	0.805
62DAP/57DAP	1.53149	0.723
68DAP/62DAP	0.7967	0.579
68DAP/14DAP	1.0909	0.762

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.98239	0.635

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	0.71088	0.272
Mature Green Tomato/Ripe Tomato	0.9078	0.522
Immature Eggplant/Mature Eggplant	0.90844	0.545
Ripe Pepper/Ripe Tomato	0.64636	0.224
Mature Eggplant/Ripe Tomato	0.31356	1

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	0.95321	0.944
1-1-2/M82	0.99042	1
12-2/M82	0.99896	1
12-4/M82	1.19381
1-3/M82	0.91581	1
2-1-1/M82	1.28479
2-1/M82	N/A	N/A
2-6/M82	1.16293	0.405
3-2/M82	0.82604
4-1-1/M82	1.02124	0.874
4-1/M82	1.06002
4-3-2/M82	1.0148
4-3/M82	0.84798	0.72
5-3/M82	0.97035	1
6-2/M82	0.97728	1
6-3/M82	1.04016	1
7-1/M82	1.22633	0.925
7-2/M82	1.03509	1
9-3-2/M82	N/A	N/A

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	1.41426	0.277
IL2-6/WTpooled	0.87848	0.383
IL7-5/WTpooled	0.93438	1
IL7-3/WTpooled	1.07557	1
IL12-4/WTpooled	1.16456	0.624
IL1-4/WTpooled	1.16146	1
WT/WTpooled	1.00446	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	1.14873	0.177

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.95891	1
DC3000/delta hrp 6h	1.11348	1
DC3000/delta hrp 12h	1.00238
DC3000/delta hrp 24h	1.03907	0.655

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.03386	0.648
DC3000 delta B/DC3000 delta AB	1.09625	0.423

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	1.04954	1
Exp 36h	1.19336	1
Exp 60h	1.10722	0.563

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

hybridization	ratio	FDR (corrected p value)
self-self	0.96338	1
Var 0h	1.04273	0.98
Var 12h I row2-row1	1.14445	0.204
Var 12h NI row2-row1	1.07493	1
Var 36h I row2-row1	0.74912	0.805
Var 36h NI row2-row1	0.96188	0.791
Var 60h I row2-row1	1.20696	0.562
Var 60h NI row2-row1	1.16284	0.904
Time course 0hI-0hNI	1.07664	0.764
Time course 12hI-12hNI	1.08434	0.572
Time course 36hI-36hNI	1.01764	0.89
Time course 60hI-60hNI	1.71213	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)	0.9978	0.931
transgenic ySAMdc/azygous control (breaker)	1.01373	1
transgenic ySAMdc/azygous control (red)	0.97196	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.97724	0.362

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.09994	1

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.81443	0.172
Manapal/WT (break)	0.87295	1
Manapal/WT (red)	0.82119	0.315