Tomato Functional Genomics Database (TFGD)

Expression of 1-1-3.2.20.6

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.88749	0.551
27DAP/17DAP	0.92152	0.873
39DAP/27DAP	0.9613	0.733
41DAP/39DAP	0.82771	0.49
42DAP/41DAP	0.80879	1
43DAP/42DAP	1.14709	0.793
47DAP/43DAP	0.90982	0.667
52DAP/47DAP	1.09237	0.934
57DAP/52DAP	2.36675	0.969

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.96633	0.442
17DAP/reference	1.09406	0.096
27DAP/reference	0.9998	0.904
39DAP/reference	1.01899	0.453
41DAP/reference	1.03787	0.714
42DAP/reference	0.95263	0.134
43DAP/reference	0.97136	0.538
47DAP/reference	0.87122	0.008
52DAP/reference	0.8281	0.093
57DAP/reference	0.90119	0.131

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.98898	0.826
27DAP/17DAP	1.05911	0.919
39DAP/27DAP	1.07831	0.677
41DAP/39DAP	1.101	1
42DAP/41DAP	1.0911	0.991
43DAP/42DAP	1.19054	0.351
47DAP/43DAP	1.17869	0.897
52DAP/47DAP	1.17662	0.991
57DAP/52DAP	1.15107	0.756
57DAP/7DAP	1.0739	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.87345	0.246
17DAP/reference	0.82422	0.064
27DAP/reference	1.02413	1
39DAP/reference	0.56745	0.011
41DAP/reference	0.68496	0.064
42DAP/reference	0.71696	0.022
43DAP/reference	0.85804	0.166
47DAP/reference	0.79769	0.168
52DAP/reference	0.8706	0.15
57DAP/reference	0.99568	0.629

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.01035	0.903
17DAP/reference	1.04872	0.448
27DAP/reference	0.79715	0.097
39DAP/reference	0.83798	0.117
41DAP/reference	0.80076	0.031
42DAP/reference	0.88271	0.121
43DAP/reference	1.10172	0.473
47DAP/reference	0.86613	0.017
52DAP/reference	0.97011	0.28
57DAP/reference	1.20187	0.188

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.85537	0.104
17DAP/reference	0.96203	0.592
27DAP/reference	0.76922	0.05
39DAP/reference	0.93093	0.147
41DAP/reference	1.04708	0.682
42DAP/reference	0.80295	0.036
43DAP/reference	0.86486	0.051
47DAP/reference	1.04668	0.877
52DAP/reference	1.06729	0.946
57DAP/reference	0.71334	0.037

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.51717	0.966
26DAP/20DAP	1.07799	0.793
34DAP/26DAP	0.6842	0.104
51DAP/34DAP	1.11211
52DAP/51DAP	0.87116	1
53DAP/52DAP	0.94371	0.79
55DAP/53DAP	0.81603	0.592
57DAP/55DAP	1.36689	0.728
62DAP/57DAP	1.16705	0.833
68DAP/62DAP	1.2544	0.298
68DAP/14DAP	0.81667	0.375

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.1165	0.821

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	0.94481
Mature Green Tomato/Ripe Tomato	0.90944	0.347
Immature Eggplant/Mature Eggplant	N/A	N/A
Ripe Pepper/Ripe Tomato	0.90367	1
Mature Eggplant/Ripe Tomato	0.80594	1

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	0.95015	0.944
1-1-2/M82	0.92729	1
12-2/M82	1.03353
12-4/M82	1.14064	1
1-3/M82	0.76803	0.441
2-1-1/M82	1.10774	1
2-1/M82	N/A	N/A
2-6/M82	1.11043	0.695
3-2/M82	0.96465
4-1-1/M82	1.10269	0.966
4-1/M82	0.57045
4-3-2/M82	0.84471	1
4-3/M82	0.65049
5-3/M82	0.95411	1
6-2/M82	N/A	N/A
6-3/M82	1.10213
7-1/M82	0.8885
7-2/M82	0.98594	1
9-3-2/M82	0.81673	0.449

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	N/A	N/A
IL2-6/WTpooled	0.83846	1
IL7-5/WTpooled	1.177	0.635
IL7-3/WTpooled	1.03116	1
IL12-4/WTpooled	0.98783	1
IL1-4/WTpooled	0.77374	0.415
WT/WTpooled	1.0827	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	N/A	N/A

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.9744	1
DC3000/delta hrp 6h	1.02336	1
DC3000/delta hrp 12h	0.90658	1
DC3000/delta hrp 24h	1.00513	0.84

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.29965
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	1.07692	1
Exp 36h	1.20267	1
Exp 60h	1.06789	1

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

hybridization	ratio	FDR (corrected p value)
self-self	0.67746
Var 0h	N/A	N/A
Var 12h I row2-row1	1.0756	0.613
Var 12h NI row2-row1	1.00988	1
Var 36h I row2-row1	1.37394	1
Var 36h NI row2-row1	4.51171	1
Var 60h I row2-row1	0.81572	0.292
Var 60h NI row2-row1	1.85993	0.904
Time course 0hI-0hNI	0.84886	0.618
Time course 12hI-12hNI	1.05035	0.867
Time course 36hI-36hNI	0.94041	0.198
Time course 60hI-60hNI	1.7441	0.013

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)	1.13322	0.267
transgenic ySAMdc/azygous control (breaker)	0.85226	0.49
transgenic ySAMdc/azygous control (red)	0.96154	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.01517	0.687

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.75494	0.238

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.84925	1
Manapal/WT (break)	0.8158	0.333
Manapal/WT (red)	0.95545	0.503