Tomato Functional Genomics Database (TFGD)

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Expression of 1-1-3.1.16.5

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.88346	0.395
27DAP/17DAP	0.90995	0.783
39DAP/27DAP	1.09629	0.841
41DAP/39DAP	1.23683	0.422
42DAP/41DAP	1.29296	0.578
43DAP/42DAP	0.97947	0.93
47DAP/43DAP	1.16087	0.391
52DAP/47DAP	0.80872	0.502
57DAP/52DAP	1.18929	0.963

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.1637	0.05
17DAP/reference	1.12755	0.02
27DAP/reference	1.03161	0.759
39DAP/reference	1.00817	0.857
41DAP/reference	1.1297	0.093
42DAP/reference	1.03614	0.756
43DAP/reference	1.08553	0.34
47DAP/reference	0.99797	0.568
52DAP/reference	1.07271	0.354
57DAP/reference	0.896	0.118

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.98411	0.75
27DAP/17DAP	1.05111	0.923
39DAP/27DAP	0.9713	0.844
41DAP/39DAP	1.07781	0.59
42DAP/41DAP	0.91831	0.591
43DAP/42DAP	0.88327	0.216
47DAP/43DAP	1.1351	0.376
52DAP/47DAP	0.99427	0.941
57DAP/52DAP	0.92558	0.537
57DAP/7DAP	0.86688	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.63731	0.032
17DAP/reference	1.27485	0.022
27DAP/reference	0.84884	0.125
39DAP/reference	0.92309	0.198
41DAP/reference	1.03935	0.767
42DAP/reference	1.03389	0.889
43DAP/reference	1.01716	0.873
47DAP/reference	0.99549	1
52DAP/reference	0.94453	0.278
57DAP/reference	0.91173	0.101

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.0932	0.265
17DAP/reference	1.12243	0.127
27DAP/reference	1.05072	0.562
39DAP/reference	0.96453	0.392
41DAP/reference	0.91415	0.152
42DAP/reference	1.01346	1
43DAP/reference	1.03733	0.673
47DAP/reference	1.09586	0.301
52DAP/reference	1.06482	0.124
57DAP/reference	1.14511	0.123

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.40274	0.023
17DAP/reference	9.16505	0.488
27DAP/reference	0.96808	0.442
39DAP/reference	0.94479	0.147
41DAP/reference	0.88326	0.132
42DAP/reference	0.96024	0.445
43DAP/reference	0.94837	0.281
47DAP/reference	1.05801	0.704
52DAP/reference	1.02025	0.928
57DAP/reference	0.8746	0.064

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.08984	0.966
26DAP/20DAP	0.88812	0.512
34DAP/26DAP	0.90864	0.811
51DAP/34DAP	0.7587	0.063
52DAP/51DAP	1.07123	0.638
53DAP/52DAP	1.3307	0.261
55DAP/53DAP	1.2813	0.162
57DAP/55DAP	1.13945	0.975
62DAP/57DAP	1.02402	1
68DAP/62DAP	0.87122	0.668
68DAP/14DAP	0.88361	1

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.36863	0.264

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	0.80014	0.276
Mature Green Tomato/Ripe Tomato	1.17134	0.106
Immature Eggplant/Mature Eggplant	1.58083	0.05
Ripe Pepper/Ripe Tomato	1.12689	1
Mature Eggplant/Ripe Tomato	1.06677	1

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	0.93846	N/A
1-1-2/M82	0.88029	N/A
12-2/M82	N/A	N/A
12-4/M82	0.68406	0.298
1-3/M82	1.92258	0.255
2-1-1/M82	0.68525	N/A
2-1/M82	1.54449	1
2-6/M82	N/A	N/A
3-2/M82	1.02571	N/A
4-1-1/M82	1.22514	N/A
4-1/M82	N/A	N/A
4-3-2/M82	0.97889	0.698
4-3/M82	1.3818	1
5-3/M82	1.22181	0.378
6-2/M82	N/A	N/A
6-3/M82	N/A	N/A
7-1/M82	1.35033	N/A
7-2/M82	1.94645	0.188
9-3-2/M82	0.93386	0.355

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	N/A	N/A
IL2-6/WTpooled	1.01314	1
IL7-5/WTpooled	N/A	N/A
IL7-3/WTpooled	1.26466	1
IL12-4/WTpooled	1.12742	0.673
IL1-4/WTpooled	0.96374	N/A
WT/WTpooled	1.02143	0.999

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	1.47643	0.222

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.99202	1
DC3000/delta hrp 6h	0.96296	0.95
DC3000/delta hrp 12h	1.01608	1
DC3000/delta hrp 24h	2.36833	0.025

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	0.7385	N/A
DC3000 delta B/DC3000 delta AB	1.01458	1

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	0.97211	1
Exp 36h	1.55496	1
Exp 60h	1.15283	1

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

hybridization	ratio	FDR (corrected p value)
self-self	1.01964	1
Var 0h	1.16778	1
Var 12h I row2-row1	0.87671	0.363
Var 12h NI row2-row1	1.00828	1
Var 36h I row2-row1	1.19592	0.601
Var 36h NI row2-row1	0.80094	0.329
Var 60h I row2-row1	0.95957	0.952
Var 60h NI row2-row1	0.91724	0.977
Time course 0hI-0hNI	0.92007	0.384
Time course 12hI-12hNI	0.98858	0.964
Time course 36hI-36hNI	1.19586	0.147
Time course 60hI-60hNI	1.29928	0.015

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)	0.93355	0.428
transgenic ySAMdc/azygous control (breaker)	0.83609	0.251
transgenic ySAMdc/azygous control (red)	0.91165	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.06438	0.287

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.73967	0.255

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.80597	0.14
Manapal/WT (break)	1.54594	0.123
Manapal/WT (red)	2.01943	0.222