Tomato Functional Genomics Database (TFGD)

Expression of 1-1-7.4.20.2

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.04031	0.964
27DAP/17DAP	1.1589	0.927
39DAP/27DAP	0.95436	0.67
41DAP/39DAP	0.91513	0.681
42DAP/41DAP	1.18456	1
43DAP/42DAP	0.95661	0.91
47DAP/43DAP	1.36758	0.52
52DAP/47DAP	1.52779	0.23
57DAP/52DAP	0.96368	0.957

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.21392	0.218
17DAP/reference	1.42354	0.585
27DAP/reference	1.43849	0.011
39DAP/reference	1.2155
41DAP/reference	1.59462	0.667
42DAP/reference	0.84887	0.182
43DAP/reference	N/A	N/A
47DAP/reference	0.96456	0.503
52DAP/reference	0.78675
57DAP/reference	0.75027	0.086

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.0352	0.847
27DAP/17DAP	0.99188	0.943
39DAP/27DAP	1.14065	0.478
41DAP/39DAP	0.99773	0.973
42DAP/41DAP	1.18467	0.446
43DAP/42DAP	1.00964	0.991
47DAP/43DAP	0.98482	0.911
52DAP/47DAP	0.78225	0.309
57DAP/52DAP	0.8009	0.339
57DAP/7DAP	0.74746

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.21268	0.181
17DAP/reference	0.90412	0.144
27DAP/reference	1.10055	0.453
39DAP/reference	0.87038	0.146
41DAP/reference	0.95472	0.357
42DAP/reference	0.89012	0.189
43DAP/reference	0.74894	0.028
47DAP/reference	0.99905	0.671
52DAP/reference	0.84073	0.061
57DAP/reference	1.06349	0.571

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.02125	0.767
17DAP/reference	0.99368	0.711
27DAP/reference	0.92317	0.366
39DAP/reference	1.0429	0.764
41DAP/reference	0.83522	0.056
42DAP/reference	0.71466	0.392
43DAP/reference	1.06717	0.777
47DAP/reference	N/A	N/A
52DAP/reference	1.07315	0.145
57DAP/reference	1.02862	0.786

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.95906	0.362
17DAP/reference	1.06809	0.699
27DAP/reference	0.9886	0.657
39DAP/reference	1.03173	0.752
41DAP/reference	0.92902	0.331
42DAP/reference	0.84463	0.087
43DAP/reference	0.82968	0.125
47DAP/reference	0.92594	0.066
52DAP/reference	1.41555	0.412
57DAP/reference	0.92494	0.41

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.01641	0.966
26DAP/20DAP	1.04101	1
34DAP/26DAP	1.00839	1
51DAP/34DAP	1.01974	0.98
52DAP/51DAP	1.04881	0.783
53DAP/52DAP	1.14953	0.47
55DAP/53DAP	1.03834	1
57DAP/55DAP	1.47623	0.841
62DAP/57DAP	1.20094	0.902
68DAP/62DAP	1.10185	0.821
68DAP/14DAP	1.12182	0.578

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.95468	0.547

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	0.60825	0.141
Mature Green Tomato/Ripe Tomato	1.40366	0.106
Immature Eggplant/Mature Eggplant	1.70444	0.05
Ripe Pepper/Ripe Tomato	1.45297	1
Mature Eggplant/Ripe Tomato	1.35094	1

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.02131	1
1-1-2/M82	0.92259	1
12-2/M82	1.16018	1
12-4/M82	1.02016	1
1-3/M82	0.81766	0.378
2-1-1/M82	1.06017
2-1/M82	1.46643	1
2-6/M82	1.15559	0.505
3-2/M82	0.76525
4-1-1/M82	1.08519	0.968
4-1/M82	1.0238	1
4-3-2/M82	0.859	0.698
4-3/M82	0.82529	1
5-3/M82	1.0228	1
6-2/M82	0.89237	0.497
6-3/M82	1.03516	1
7-1/M82	0.99028
7-2/M82	1.03354	1
9-3-2/M82	0.74467	0.355

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	1.11907	1
IL2-6/WTpooled	1.0814	1
IL7-5/WTpooled	0.7834	1
IL7-3/WTpooled	1.45779	1
IL12-4/WTpooled	0.93536	1
IL1-4/WTpooled	1.04207	1
WT/WTpooled	0.94241	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	N/A	N/A

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.96889	1
DC3000/delta hrp 6h	1.18366	1
DC3000/delta hrp 12h	1.06805	1
DC3000/delta hrp 24h	1.08771	0.453

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	0.96709	1
Exp 36h	0.98938	0.943
Exp 60h	1.09828	1

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

hybridization	ratio	FDR (corrected p value)
self-self	N/A	N/A
Var 0h	N/A	N/A
Var 12h I row2-row1	0.9571	0.948
Var 12h NI row2-row1	0.81062	0.627
Var 36h I row2-row1	N/A	N/A
Var 36h NI row2-row1	1.77132	1
Var 60h I row2-row1	0.9758	1
Var 60h NI row2-row1	0.98374	1
Time course 0hI-0hNI	0.8359	0.356
Time course 12hI-12hNI	1.00629	1
Time course 36hI-36hNI	0.6535	0.047
Time course 60hI-60hNI	0.80102	0.319

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)	1.12361	0.273
transgenic ySAMdc/azygous control (breaker)	1.06139	1
transgenic ySAMdc/azygous control (red)	1.00641	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	N/A	N/A

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.14814	0.277

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.80891	1
Manapal/WT (break)	0.97992	1
Manapal/WT (red)	1.098	0.413