Tomato Functional Genomics Database (TFGD)

Expression of 1-1-5.2.17.2

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.06104	0.798
27DAP/17DAP	1.0544	0.883
39DAP/27DAP	0.87544	0.495
41DAP/39DAP	1.19978	0.282
42DAP/41DAP	0.92341	1
43DAP/42DAP	1.02655	1
47DAP/43DAP	0.97209	0.884
52DAP/47DAP	0.85694	0.612
57DAP/52DAP	1.03223	0.952

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.95073	0.326
17DAP/reference	1.13448	0.017
27DAP/reference	1.00822	0.966
39DAP/reference	1.01687	0.654
41DAP/reference	1.04318	0.241
42DAP/reference	0.99147	0.469
43DAP/reference	1.05843	0.403
47DAP/reference	0.99468	0.602
52DAP/reference	0.97207	0.449
57DAP/reference	0.97031	0.358

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.95144	0.644
27DAP/17DAP	1.02076	0.945
39DAP/27DAP	0.96681	0.775
41DAP/39DAP	0.98929	1
42DAP/41DAP	0.92197	0.365
43DAP/42DAP	1.056	0.664
47DAP/43DAP	0.98495	0.911
52DAP/47DAP	0.97769	0.902
57DAP/52DAP	0.96976	0.628
57DAP/7DAP	0.91247	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.93402	0.071
17DAP/reference	0.86923	0.013
27DAP/reference	0.80955	0.01
39DAP/reference	1.0344	0.538
41DAP/reference	0.9511	0.247
42DAP/reference	0.87306	0.063
43DAP/reference	1.08923	0.226
47DAP/reference	0.93887	0.293
52DAP/reference	1.00554	0.941
57DAP/reference	1.1426	0.125

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.98699	0.786
17DAP/reference	0.89867	0.077
27DAP/reference	0.95537	0.407
39DAP/reference	0.93637	0.265
41DAP/reference	1.0463	0.878
42DAP/reference	0.9937	0.655
43DAP/reference	0.8872	0.062
47DAP/reference	1.00817	1
52DAP/reference	0.96728	0.28
57DAP/reference	0.87974	0.04

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.86487	0.065
17DAP/reference	0.86118	0.103
27DAP/reference	0.90772	0.062
39DAP/reference	0.96483	0.36
41DAP/reference	0.90486	0.02
42DAP/reference	0.76099	0.036
43DAP/reference	0.89787	0.081
47DAP/reference	1.02105	0.792
52DAP/reference	0.75122	0.139
57DAP/reference	0.78012	0.047

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.07795	0.966
26DAP/20DAP	0.95102	1
34DAP/26DAP	0.97792	0.944
51DAP/34DAP	1.03477	0.759
52DAP/51DAP	0.94756	1
53DAP/52DAP	1.05246	0.882
55DAP/53DAP	0.93008	0.445
57DAP/55DAP	1.02159	1
62DAP/57DAP	0.98502	0.994
68DAP/62DAP	0.95005	0.787
68DAP/14DAP	0.94212	1

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.88408	0.087

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	1.54318	0.058
Mature Green Tomato/Ripe Tomato	1.0044	0.898
Immature Eggplant/Mature Eggplant	0.75285	0.092
Ripe Pepper/Ripe Tomato	0.82597	0.224
Mature Eggplant/Ripe Tomato	N/A	N/A

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.00334	1
1-1-2/M82	0.91885	0.958
12-2/M82	0.95169	0.955
12-4/M82	0.91079	1
1-3/M82	0.92861	0.501
2-1-1/M82	0.89533	0.683
2-1/M82	1.38227	1
2-6/M82	0.97154	1
3-2/M82	1.07778
4-1-1/M82	1.03368	1
4-1/M82	0.90485	1
4-3-2/M82	0.91248	1
4-3/M82	0.93508	0.72
5-3/M82	0.98436	1
6-2/M82	1.00056	1
6-3/M82	1.04273	1
7-1/M82	0.90974	1
7-2/M82	0.97288	0.881
9-3-2/M82	0.87599	0.449

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	N/A	N/A
IL2-6/WTpooled	0.43025	0.358
IL7-5/WTpooled	N/A	N/A
IL7-3/WTpooled	1.23347	0.362
IL12-4/WTpooled	1.28703	0.646
IL1-4/WTpooled	0.8147	0.562
WT/WTpooled	0.9395	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	1.1856	0.853

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.03845	0.921
DC3000/delta hrp 6h	1.00426	0.95
DC3000/delta hrp 12h	1.05418	1
DC3000/delta hrp 24h	0.93056	0.371

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.05927	0.06
DC3000 delta B/DC3000 delta AB	1.04304	0.528

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	1.05617	1
Exp 36h	0.92388	0.82
Exp 60h	0.96235	0.994

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

hybridization	ratio	FDR (corrected p value)
self-self	N/A	N/A
Var 0h	0.28519	1
Var 12h I row2-row1	N/A	N/A
Var 12h NI row2-row1	N/A	N/A
Var 36h I row2-row1	N/A	N/A
Var 36h NI row2-row1	N/A	N/A
Var 60h I row2-row1	N/A	N/A
Var 60h NI row2-row1	N/A	N/A
Time course 0hI-0hNI	N/A	N/A
Time course 12hI-12hNI	N/A	N/A
Time course 36hI-36hNI	N/A	N/A
Time course 60hI-60hNI	N/A	N/A

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)	1.08085	0.283
transgenic ySAMdc/azygous control (breaker)	0.71561	0.15
transgenic ySAMdc/azygous control (red)	1.00976	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	N/A	N/A

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.87988	0.241

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.06174	1
Manapal/WT (break)	1.02768	1
Manapal/WT (red)	0.83745	0.242