Tomato Functional Genomics Database (TFGD)

Expression of 1-1-7.4.18.5

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.00554	0.839
27DAP/17DAP	1.15419	0.842
39DAP/27DAP	0.9036	0.573
41DAP/39DAP	1.69095	0.084
42DAP/41DAP	1.04391	1
43DAP/42DAP	0.8775	0.767
47DAP/43DAP	0.96831	0.84
52DAP/47DAP	2.19965	0.307
57DAP/52DAP	0.81673	0.796

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.29474	0.052
17DAP/reference	1.08535	0.032
27DAP/reference	1.00559	1
39DAP/reference	1.09681	0.119
41DAP/reference	1.16736	0.013
42DAP/reference	1.20168	0.002
43DAP/reference	1.10779	0.126
47DAP/reference	1.04623	0.365
52DAP/reference	1.1014	0.176
57DAP/reference	1.01676	1

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.00368	0.899
27DAP/17DAP	1.04944	0.909
39DAP/27DAP	1.12058	0.359
41DAP/39DAP	0.96666	0.934
42DAP/41DAP	1.12278	0.425
43DAP/42DAP	0.97216	0.751
47DAP/43DAP	1.09022	0.664
52DAP/47DAP	1.0317	0.973
57DAP/52DAP	1.06412	0.643
57DAP/7DAP	1.17008	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.93666	0.224
17DAP/reference	0.92826	0.024
27DAP/reference	0.97113	0.264
39DAP/reference	0.89275	0.015
41DAP/reference	0.84013	0.024
42DAP/reference	0.82271	0.01
43DAP/reference	0.87499	0.145
47DAP/reference	0.91874	0.293
52DAP/reference	0.87909	0.163
57DAP/reference	0.86607	0.08

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.15196	0.085
17DAP/reference	1.16137	0.029
27DAP/reference	1.01429	0.735
39DAP/reference	1.25824	0.061
41DAP/reference	1.17289	0.188
42DAP/reference	1.10998	0.309
43DAP/reference	1.22508	0.093
47DAP/reference	1.04794	0.658
52DAP/reference	1.22113	0.01
57DAP/reference	1.35471	0.007

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.92254	0.033
17DAP/reference	1.09096	0.394
27DAP/reference	0.85593	0.033
39DAP/reference	0.92562	0.031
41DAP/reference	0.96305	0.264
42DAP/reference	1.09563	0.265
43DAP/reference	1.0854	0.388
47DAP/reference	1.01102	1
52DAP/reference	0.89908	0.376
57DAP/reference	0.80383	0.078

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.95091	1
26DAP/20DAP	0.94043	0.512
34DAP/26DAP	1.07332	1
51DAP/34DAP	0.99359	0.917
52DAP/51DAP	1.0089	0.965
53DAP/52DAP	1.00917	1
55DAP/53DAP	1.10099	0.537
57DAP/55DAP	1.03103	1
62DAP/57DAP	1.06765	1
68DAP/62DAP	0.76268	0.227
68DAP/14DAP	0.68872	0.375

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.04284	0.74

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	N/A	N/A
Mature Green Tomato/Ripe Tomato	0.99556	0.835
Immature Eggplant/Mature Eggplant	2.43515
Ripe Pepper/Ripe Tomato	0.48564	0.293
Mature Eggplant/Ripe Tomato	0.16184	0.234

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.0058	1
1-1-2/M82	1.01513	1
12-2/M82	1.2868	0.61
12-4/M82	1.05477
1-3/M82	0.89221	0.501
2-1-1/M82	N/A	N/A
2-1/M82	N/A	N/A
2-6/M82	0.97066	1
3-2/M82	0.92251	0.752
4-1-1/M82	1.0371	1
4-1/M82	0.60178	1
4-3-2/M82	0.83535	0.698
4-3/M82	0.98732	1
5-3/M82	0.99051	1
6-2/M82	0.98433	1
6-3/M82	0.99232	1
7-1/M82	1.03395	1
7-2/M82	1.00759	1
9-3-2/M82	0.87754	0.449

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	0.74273	0.243
IL2-6/WTpooled	1.14424	0.46
IL7-5/WTpooled	0.6114	1
IL7-3/WTpooled	1.02909	1
IL12-4/WTpooled	0.9514	0.581
IL1-4/WTpooled	0.98484	1
WT/WTpooled	1.02853	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	1.48736	1

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.9925	1
DC3000/delta hrp 6h	1.16934	1
DC3000/delta hrp 12h	1.1007	1
DC3000/delta hrp 24h	1.07335	0.582

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.49085	0.384
DC3000 delta B/DC3000 delta AB	1.05652	0.535

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	1.43371	1
Exp 36h	1.75504	1
Exp 60h	1.37185	0.283

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

hybridization	ratio	FDR (corrected p value)
self-self	1.01625	1
Var 0h	0.93815	1
Var 12h I row2-row1	1.13877	0.379
Var 12h NI row2-row1	0.93343	0.82
Var 36h I row2-row1	0.8248	0.575
Var 36h NI row2-row1	0.90686	0.645
Var 60h I row2-row1	1.22483	1
Var 60h NI row2-row1	1.24321	0.904
Time course 0hI-0hNI	1.15284	0.63
Time course 12hI-12hNI	1.0335	0.786
Time course 36hI-36hNI	0.9585	0.389
Time course 60hI-60hNI	1.4684	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)	0.91081	0.391
transgenic ySAMdc/azygous control (breaker)	1.18671	0.178
transgenic ySAMdc/azygous control (red)	1.01002	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.94594	0.163

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.10112	0.237

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.84526	1
Manapal/WT (break)	0.92127	1
Manapal/WT (red)	0.9465	0.607