Tomato Functional Genomics Database (TFGD)

Expression of 1-1-3.2.18.5

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.95634	0.689
27DAP/17DAP	1.08007	0.902
39DAP/27DAP	0.87006	0.382
41DAP/39DAP	1.15483	0.624
42DAP/41DAP	0.92426	1
43DAP/42DAP	1.13752	0.726
47DAP/43DAP	0.96771	0.84
52DAP/47DAP	0.93021	0.781
57DAP/52DAP	1.10424	0.908

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.0936	0.147
17DAP/reference	0.99627	0.904
27DAP/reference	0.99357	0.779
39DAP/reference	0.96578	0.35
41DAP/reference	1.04773	0.451
42DAP/reference	1.16396	0.001
43DAP/reference	0.95685	0.448
47DAP/reference	1.15782	0.002
52DAP/reference	1.32441	0.041
57DAP/reference	0.97267	0.456

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.99109	0.782
27DAP/17DAP	1.02947	0.915
39DAP/27DAP	0.98717	0.919
41DAP/39DAP	1.0089	0.914
42DAP/41DAP	1.00911	1
43DAP/42DAP	0.99694	1
47DAP/43DAP	0.98067	0.846
52DAP/47DAP	1.00775	0.979
57DAP/52DAP	1.0222	0.858
57DAP/7DAP	0.97971	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.87385	0.224
17DAP/reference	0.99629	0.599
27DAP/reference	1.28862	0.131
39DAP/reference	0.65775	0.017
41DAP/reference	0.8053	0.111
42DAP/reference	0.98152	0.531
43DAP/reference	0.66265	0.012
47DAP/reference	0.83823	0.293
52DAP/reference	0.69397	0.013
57DAP/reference	0.63889	0.006

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.16964	0.404
17DAP/reference	1.11461	0.113
27DAP/reference	1.22831	0.065
39DAP/reference	1.07712	0.463
41DAP/reference	1.07059	0.766
42DAP/reference	1.19219	0.233
43DAP/reference	1.2595	0.069
47DAP/reference	1.04291	0.556
52DAP/reference	1.16507	0.015
57DAP/reference	1.06032	0.306

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.08452	0.433
17DAP/reference	1.11444	0.436
27DAP/reference	0.96322	0.442
39DAP/reference	0.8647	0.069
41DAP/reference	0.99021	0.754
42DAP/reference	1.32171	0.035
43DAP/reference	1.01182	0.712
47DAP/reference	1.02459	0.901
52DAP/reference	1.12346	0.499
57DAP/reference	1.19865	0.126

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.93404	0.773
26DAP/20DAP	1.01027	1
34DAP/26DAP	0.99266	1
51DAP/34DAP	1.04039	0.666
52DAP/51DAP	0.99399	1
53DAP/52DAP	1.01723	0.901
55DAP/53DAP	1.00464	1
57DAP/55DAP	1.04973	0.841
62DAP/57DAP	0.98085	0.994
68DAP/62DAP	1.0452	0.89
68DAP/14DAP	0.98144	1

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.9289	0.122

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	1.14163	0.176
Mature Green Tomato/Ripe Tomato	0.7887	0.119
Immature Eggplant/Mature Eggplant	1.24506	0.076
Ripe Pepper/Ripe Tomato	1.21881	1
Mature Eggplant/Ripe Tomato	0.98011	1

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.08435	0.877
1-1-2/M82	0.91472	0.804
12-2/M82	1.05284	1
12-4/M82	1.0122	1
1-3/M82	1.01896	1
2-1-1/M82	1.06802	0.764
2-1/M82	1.18796
2-6/M82	0.98921	1
3-2/M82	0.92767	1
4-1-1/M82	1.21058	0.977
4-1/M82	1.07414	1
4-3-2/M82	0.85078	0.698
4-3/M82	1.02058	1
5-3/M82	0.925	1
6-2/M82	1.00023	1
6-3/M82	0.94704	0.423
7-1/M82	1.01517	1
7-2/M82	1.00407	1
9-3-2/M82	0.9865	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	N/A	N/A
IL7-3/WTpooled	N/A	N/A
IL12-4/WTpooled	1.26649
IL1-4/WTpooled	N/A	N/A
WT/WTpooled	1.1431	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	1.28176	0.699

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.04914	0.875
DC3000/delta hrp 6h	0.96119	0.95
DC3000/delta hrp 12h	0.95273	1
DC3000/delta hrp 24h	0.97804	0.861

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.06433	0.145
DC3000 delta B/DC3000 delta AB	1.02043	0.646

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	1.15152	1
Exp 36h	0.93112	0.471
Exp 60h	0.99811	1

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

hybridization	ratio	FDR (corrected p value)
self-self	0.98492	1
Var 0h	1.0141	1
Var 12h I row2-row1	1.07752	0.224
Var 12h NI row2-row1	0.97736	0.627
Var 36h I row2-row1	1.02849	1
Var 36h NI row2-row1	0.9318	0.522
Var 60h I row2-row1	1.0397	1
Var 60h NI row2-row1	0.96859	1
Time course 0hI-0hNI	1.02081	0.867
Time course 12hI-12hNI	1.00915	0.854
Time course 36hI-36hNI	1.19466	0.021
Time course 60hI-60hNI	1.17683	0.033

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)	1.0982	0.482
transgenic ySAMdc/azygous control (breaker)	1.02654	1
transgenic ySAMdc/azygous control (red)	1.00802	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.97443	0.067

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.77602	0.238

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.75172	0.172
Manapal/WT (break)	1.33744	0.126
Manapal/WT (red)	1.20233	0.413