Tomato Functional Genomics Database (TFGD)

Expression of 1-1-1.1.14.15

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.846	0.297
27DAP/17DAP	0.78306	0.422
39DAP/27DAP	1.21798	0.53
41DAP/39DAP	0.55125	0.041
42DAP/41DAP	0.82984	1
43DAP/42DAP	0.98081	0.925
47DAP/43DAP	0.74013	0.231
52DAP/47DAP	0.97024	0.875
57DAP/52DAP	1.09499	0.977

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.22298	0.5
17DAP/reference	1.148	0.843
27DAP/reference	2.06031	0.015
39DAP/reference	0.89018	0.575
41DAP/reference	0.88756	0.341
42DAP/reference	1.43916	0.001
43DAP/reference	1.31667	0.011
47DAP/reference	1.37411	0.003
52DAP/reference	0.8097	0.125
57DAP/reference	0.9617	0.377

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.02492	0.881
27DAP/17DAP	0.94796	0.684
39DAP/27DAP	0.72675	0.037
41DAP/39DAP	1.19905	1
42DAP/41DAP	0.94431	0.61
43DAP/42DAP	0.87264	0.246
47DAP/43DAP	0.94051	0.687
52DAP/47DAP	0.67999	0.034
57DAP/52DAP	0.80879	0.272
57DAP/7DAP	0.28403	0.219

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.99971	0.025
17DAP/reference	1.93219	0.006
27DAP/reference	1.64309	0.006
39DAP/reference	1.60668	0.007
41DAP/reference	1.43334	0.025
42DAP/reference	1.54656	0.01
43DAP/reference	1.60761	0.007
47DAP/reference	1.27595	0.324
52DAP/reference	1.65804	0.015
57DAP/reference	1.53186	0.006

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.88195	0.318
17DAP/reference	1.21726	0.415
27DAP/reference	1.40649	0.102
39DAP/reference	0.99897	0.554
41DAP/reference	1.00103	0.631
42DAP/reference	1.19224	0.144
43DAP/reference	0.7108	0.082
47DAP/reference	0.88036	0.184
52DAP/reference	0.51569	0.003
57DAP/reference	0.46846	0.006

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	2.05351	0.019
17DAP/reference	1.48299	0.191
27DAP/reference	2.38254	0.013
39DAP/reference	2.18117	0.006
41DAP/reference	1.68436	0.009
42DAP/reference	2.08922	0.007
43DAP/reference	2.28105	0.007
47DAP/reference	2.23912	0.008
52DAP/reference	1.85058	0.053
57DAP/reference	5.02117	0.007

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.05761	1
26DAP/20DAP	1.49872	0.249
34DAP/26DAP	1.08716	1
51DAP/34DAP	0.72615	0.106
52DAP/51DAP	0.85952	1
53DAP/52DAP	0.82496	0.119
55DAP/53DAP	0.86692	0.363
57DAP/55DAP	1.08423	0.986
62DAP/57DAP	0.92587	0.871
68DAP/62DAP	0.74496	0.263
68DAP/14DAP	0.8917	1

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	2.93899	0.014

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	0.69771	0.188
Mature Green Tomato/Ripe Tomato	1.97763	0.022
Immature Eggplant/Mature Eggplant	0.91555	0.366
Ripe Pepper/Ripe Tomato	1.48854	1
Mature Eggplant/Ripe Tomato	1.37799	0.373

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.43127	0.526
1-1-2/M82	1.30691	1
12-2/M82	0.68847	0.678
12-4/M82	1.16656	1
1-3/M82	N/A	N/A
2-1-1/M82	1.18826	0.764
2-1/M82	0.71875	0.322
2-6/M82	N/A	N/A
3-2/M82	0.90095	0.752
4-1-1/M82	0.42106
4-1/M82	1.53224
4-3-2/M82	2.04539	0.253
4-3/M82	1.34617	1
5-3/M82	0.9618	1
6-2/M82	1.48242
6-3/M82	0.77295	0.982
7-1/M82	1.16498	0.598
7-2/M82	1.8965	0.324
9-3-2/M82	1.87925	0.196

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	1.07933	0.277
IL2-6/WTpooled	1.16784	0.584
IL7-5/WTpooled	0.98392	1
IL7-3/WTpooled	0.80008	0.418
IL12-4/WTpooled	1.07278	0.839
IL1-4/WTpooled	1.13022	1
WT/WTpooled	1.06322	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	1.0178	1

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.017	0.921
DC3000/delta hrp 6h	1.05423	1
DC3000/delta hrp 12h	0.92623	1
DC3000/delta hrp 24h	1.03611	0.69

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.25648	0.043
DC3000 delta B/DC3000 delta AB	1.30478	0.147

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	1.22837	1
Exp 36h	0.99188	1
Exp 60h	1.17548	0.563

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

hybridization	ratio	FDR (corrected p value)
self-self	0.99393	1
Var 0h	0.96754	1
Var 12h I row2-row1	1.1057	0.58
Var 12h NI row2-row1	1.06215	1
Var 36h I row2-row1	1.16176	0.339
Var 36h NI row2-row1	1.08045	1
Var 60h I row2-row1	0.89291	0.285
Var 60h NI row2-row1	0.87896	0.756
Time course 0hI-0hNI	1.08541	0.377
Time course 12hI-12hNI	1.00641	1
Time course 36hI-36hNI	1.39406	0.006
Time course 60hI-60hNI	1.65622	0.115

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)	1.05916	0.571
transgenic ySAMdc/azygous control (breaker)	1.29226	0.248
transgenic ySAMdc/azygous control (red)	1.48811	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.50044	0.17

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.1074	1

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.16189	0.307
Manapal/WT (break)	1.5438	0.381
Manapal/WT (red)	1.17757	0.413