Tomato Functional Genomics Database (TFGD)

Expression of 1-1-3.1.10.2

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.32894	0.414
27DAP/17DAP	0.94681	0.941
39DAP/27DAP	0.919	0.462
41DAP/39DAP	0.97811	0.918
42DAP/41DAP	0.87101	1
43DAP/42DAP	0.79682	0.599
47DAP/43DAP	1.09932	1
52DAP/47DAP	0.96493	0.898
57DAP/52DAP	1.17505	0.977

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.14114	0.121
17DAP/reference	1.31259	0.014
27DAP/reference	1.17604	0.043
39DAP/reference	1.1314	0.059
41DAP/reference	1.08224	0.48
42DAP/reference	1.05508	0.485
43DAP/reference	1.20659	0.011
47DAP/reference	1.11348	0.167
52DAP/reference	0.90711	0.292
57DAP/reference	1.01892	0.984

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.16146	0.278
27DAP/17DAP	0.97641	0.887
39DAP/27DAP	0.86715	0.247
41DAP/39DAP	1.21332	0.735
42DAP/41DAP	1.00941	0.872
43DAP/42DAP	0.79827	0.024
47DAP/43DAP	0.98916	0.947
52DAP/47DAP	1.10884	0.649
57DAP/52DAP	1.26965	0.305
57DAP/7DAP	1.21474	0.365

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.94292	0.034
17DAP/reference	1.55378	0.006
27DAP/reference	1.50693	0.009
39DAP/reference	1.82998	0.009
41DAP/reference	2.09119	0.009
42DAP/reference	1.44484	0.009
43DAP/reference	2.09774	0.006
47DAP/reference	1.75383	0.027
52DAP/reference	1.60364	0.008
57DAP/reference	1.66508	0.004

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.20074	0.097
17DAP/reference	1.26982	0.012
27DAP/reference	1.06128	0.86
39DAP/reference	0.94872	0.306
41DAP/reference	0.91049	0.085
42DAP/reference	1.18067	0.176
43DAP/reference	0.87061	0.206
47DAP/reference	1.16306	0.059
52DAP/reference	1.06832	0.498
57DAP/reference	1.17228	0.462

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.21149	0.053
17DAP/reference	1.17656	0.337
27DAP/reference	1.69155	0.033
39DAP/reference	1.52969	0.012
41DAP/reference	1.28844	0.023
42DAP/reference	1.14385	0.34
43DAP/reference	1.35362	0.25
47DAP/reference	0.95379	0.409
52DAP/reference	3.03071	0.057
57DAP/reference	1.00778	0.661

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.1865	0.966
26DAP/20DAP	1.75595	0.206
34DAP/26DAP	0.86378	0.61
51DAP/34DAP	1.35814	0.164
52DAP/51DAP	1.25209	0.167
53DAP/52DAP	0.94921	0.553
55DAP/53DAP	1.15533	0.547
57DAP/55DAP	1.13007	0.927
62DAP/57DAP	0.96106	0.871
68DAP/62DAP	1.10387	0.897
68DAP/14DAP	1.04933	0.958

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.97852	0.635

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	1.00683	0.863
Mature Green Tomato/Ripe Tomato	1.46572	0.018
Immature Eggplant/Mature Eggplant	0.90838	0.594
Ripe Pepper/Ripe Tomato	1.32494	1
Mature Eggplant/Ripe Tomato	1.30851	0.268

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.05527
1-1-2/M82	N/A	N/A
12-2/M82	N/A	N/A
12-4/M82	0.93834	1
1-3/M82	N/A	N/A
2-1-1/M82	N/A	N/A
2-1/M82	N/A	N/A
2-6/M82	N/A	N/A
3-2/M82	1.17563
4-1-1/M82	N/A	N/A
4-1/M82	N/A	N/A
4-3-2/M82	N/A	N/A
4-3/M82	1.35228	0.268
5-3/M82	0.96258	1
6-2/M82	N/A	N/A
6-3/M82	N/A	N/A
7-1/M82	N/A	N/A
7-2/M82	N/A	N/A
9-3-2/M82	N/A	N/A

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	0.93398	1
IL2-6/WTpooled	0.99091	1
IL7-5/WTpooled	0.89166	1
IL7-3/WTpooled	1.12877	1
IL12-4/WTpooled	0.85489	0.71
IL1-4/WTpooled	0.96975	1
WT/WTpooled	1.02815	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	1.07556	1

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.09565	0.914
DC3000/delta hrp 6h	1.36855
DC3000/delta hrp 12h	1.02184	1
DC3000/delta hrp 24h	1.48725	0.604

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	1.07136	0.498

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	0.77928	1
Exp 36h	1.15354	1
Exp 60h	0.86824	0.754

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

hybridization	ratio	FDR (corrected p value)
self-self	1.00204	1
Var 0h	0.94001	1
Var 12h I row2-row1	1.06622	0.406
Var 12h NI row2-row1	1.12753	0.649
Var 36h I row2-row1	0.93316	1
Var 36h NI row2-row1	1.15653	1
Var 60h I row2-row1	1.12335	1
Var 60h NI row2-row1	1.24118	0.904
Time course 0hI-0hNI	1.05721	0.833
Time course 12hI-12hNI	0.93825	0.54
Time course 36hI-36hNI	0.78961	0.023
Time course 60hI-60hNI	0.81719	0.047

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)	1.35658	0.326
transgenic ySAMdc/azygous control (breaker)	1.04397	1
transgenic ySAMdc/azygous control (red)	1.24217	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.07965	0.13

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.86166	0.308

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.93828	1
Manapal/WT (break)	1.04294	1
Manapal/WT (red)	1.36728	0.134