Tomato Functional Genomics Database (TFGD)

Expression of 1-1-1.2.16.11

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.98632	0.858
27DAP/17DAP	0.93163	0.923
39DAP/27DAP	1.20474	0.899
41DAP/39DAP	1.02478	0.904
42DAP/41DAP	1.05731	1
43DAP/42DAP	0.98691	0.909
47DAP/43DAP	1.07195	0.856
52DAP/47DAP	1.02519	0.861
57DAP/52DAP	1.11566	0.98

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.09168	0.685
17DAP/reference	1.50644	0.071
27DAP/reference	1.33337	0.306
39DAP/reference	1.26356	0.191
41DAP/reference	1.77908	0.014
42DAP/reference	1.25694	0.012
43DAP/reference	1.16893	0.382
47DAP/reference	1.09804	0.937
52DAP/reference	1.09911	0.73
57DAP/reference	0.81279	0.118

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.81632	0.289
27DAP/17DAP	1.1879	0.794
39DAP/27DAP	1.55951	0.078
41DAP/39DAP	1.10351	0.827
42DAP/41DAP	1.10387	1
43DAP/42DAP	1.30042	0.273
47DAP/43DAP	1.02267	0.977
52DAP/47DAP	1.10923	0.819
57DAP/52DAP	1.09615	0.933
57DAP/7DAP	1.83052	0.204

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.71132	0.058
17DAP/reference	1.02755	0.754
27DAP/reference	0.83079	0.159
39DAP/reference	0.91556	0.264
41DAP/reference	1.00059	0.677
42DAP/reference	0.7672	0.01
43DAP/reference	1.03104	1
47DAP/reference	0.84739	0.504
52DAP/reference	1.32308	0.113
57DAP/reference	1.27708	0.158

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.17085	0.463
17DAP/reference	1.16561	0.303
27DAP/reference	0.95536	0.438
39DAP/reference	1.27704	0.657
41DAP/reference	1.0794	0.766
42DAP/reference	1.02758	1
43DAP/reference	1.07588	0.562
47DAP/reference	1.20942	0.795
52DAP/reference	1.29347	0.259
57DAP/reference	1.34559	0.091

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.19738	0.846
17DAP/reference	0.89683	0.636
27DAP/reference	N/A	N/A
39DAP/reference	1.07029	0.813
41DAP/reference	1.12041	1
42DAP/reference	1.20484	0.279
43DAP/reference	1.42385	0.09
47DAP/reference	1.10697	0.501
52DAP/reference	1.31478	0.233
57DAP/reference	1.26249	0.8

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	N/A	N/A
26DAP/20DAP	1.01621	1
34DAP/26DAP	0.79486	0.35
51DAP/34DAP	1.13068	0.692
52DAP/51DAP	0.81843	1
53DAP/52DAP	1.05022	0.882
55DAP/53DAP	0.88941	0.648
57DAP/55DAP	1.18031	0.906
62DAP/57DAP	1.0707	0.935
68DAP/62DAP	1.0418	0.984
68DAP/14DAP	0.46792	0.086

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.60516	0.062

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	N/A	N/A
Mature Green Tomato/Ripe Tomato	0.6208	0.148
Immature Eggplant/Mature Eggplant	N/A	N/A
Ripe Pepper/Ripe Tomato	0.7214
Mature Eggplant/Ripe Tomato	1.35744	1

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	0.97605	0.944
1-1-2/M82	0.91059	0.804
12-2/M82	0.99653	1
12-4/M82	1.11699
1-3/M82	0.98558	1
2-1-1/M82	0.9929
2-1/M82	N/A	N/A
2-6/M82	1.08431	0.452
3-2/M82	1.01158
4-1-1/M82	1.16127	1
4-1/M82	0.97812
4-3-2/M82	0.78663
4-3/M82	1.13889	1
5-3/M82	0.95316	1
6-2/M82	1.13109
6-3/M82	N/A	N/A
7-1/M82	N/A	N/A
7-2/M82	0.96799	0.599
9-3-2/M82	N/A	N/A

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	0.64093	0.243
IL2-6/WTpooled	0.92097	1
IL7-5/WTpooled	0.99052	1
IL7-3/WTpooled	0.70664	0.31
IL12-4/WTpooled	0.78029	0.566
IL1-4/WTpooled	0.99864	1
WT/WTpooled	0.94352	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	0.82285	0.216

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.92199	1
DC3000/delta hrp 6h	N/A	N/A
DC3000/delta hrp 12h	1.09055	1
DC3000/delta hrp 24h	0.91548	0.464

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	N/A	N/A
Exp 36h	N/A	N/A
Exp 60h	N/A	N/A

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

hybridization	ratio	FDR (corrected p value)
self-self	0.99914
Var 0h	0.90331	0.457
Var 12h I row2-row1	1.10333	0.473
Var 12h NI row2-row1	1.27746	1
Var 36h I row2-row1	1.34715	0.908
Var 36h NI row2-row1	0.80358	0.645
Var 60h I row2-row1	1.70808	1
Var 60h NI row2-row1	0.94831	1
Time course 0hI-0hNI	0.95334	0.852
Time course 12hI-12hNI	1.14831	0.109
Time course 36hI-36hNI	1.09149	0.063
Time course 60hI-60hNI	1.19544	0.359

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)	N/A	N/A
transgenic ySAMdc/azygous control (breaker)	N/A	N/A
transgenic ySAMdc/azygous control (red)	N/A	N/A

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.07765	0.372

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	N/A	N/A

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	N/A	N/A
Manapal/WT (break)	1.02824	1
Manapal/WT (red)	1.29354	0.134