Tomato Functional Genomics Database (TFGD)

Expression of 1-1-4.1.18.16

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.04954	0.827
27DAP/17DAP	1.05765	0.91
39DAP/27DAP	1.23264	0.899
41DAP/39DAP	1.29689	0.464
42DAP/41DAP	1.038	1
43DAP/42DAP	1.37215	0.816
47DAP/43DAP	1.2866	0.448
52DAP/47DAP	0.97567	0.818
57DAP/52DAP	1.05843	0.996

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.9213	0.125
17DAP/reference	1.01315	0.764
27DAP/reference	0.95866	0.232
39DAP/reference	0.99405	0.941
41DAP/reference	1.04128	0.48
42DAP/reference	1.00313	1
43DAP/reference	0.97161	0.519
47DAP/reference	1.03299	0.243
52DAP/reference	1.00947	1
57DAP/reference	0.90736	0.101

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.98891	0.782
27DAP/17DAP	0.98984	0.724
39DAP/27DAP	1.04387	0.57
41DAP/39DAP	1.08497	0.362
42DAP/41DAP	0.95578	0.662
43DAP/42DAP	1.0095	0.699
47DAP/43DAP	0.99389	0.977
52DAP/47DAP	1.04309	0.823
57DAP/52DAP	1.01607	0.925
57DAP/7DAP	1.04233	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.90718	0.071
17DAP/reference	0.88804	0.019
27DAP/reference	0.89209	0.01
39DAP/reference	0.98245	0.198
41DAP/reference	0.94567	0.058
42DAP/reference	0.9751	0.32
43DAP/reference	0.99965	0.764
47DAP/reference	1.18702	0.142
52DAP/reference	1.0165	0.599
57DAP/reference	0.9812	0.648

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.91443	0.1
17DAP/reference	0.90978	0.113
27DAP/reference	0.87445	0.033
39DAP/reference	1.00659	1
41DAP/reference	1.00595	0.702
42DAP/reference	0.95402	0.355
43DAP/reference	0.92663	0.298
47DAP/reference	0.9586	0.133
52DAP/reference	0.92954	0.029
57DAP/reference	0.89947	0.032

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.9308	0.077
17DAP/reference	0.9193	0.328
27DAP/reference	0.95164	0.257
39DAP/reference	0.98004	0.504
41DAP/reference	0.93026	0.132
42DAP/reference	0.9786	0.445
43DAP/reference	0.95144	0.206
47DAP/reference	1.04092	0.562
52DAP/reference	0.99959	0.946
57DAP/reference	1.15284	0.153

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.99507	1
26DAP/20DAP	0.97425	1
34DAP/26DAP	1.04559	1
51DAP/34DAP	1.00841	0.936
52DAP/51DAP	0.98579	1
53DAP/52DAP	1.07746	0.688
55DAP/53DAP	0.99948	0.939
57DAP/55DAP	1.04398	0.61
62DAP/57DAP	0.94203	0.681
68DAP/62DAP	1.78966	0.059
68DAP/14DAP	2.28955	0.069

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.00543	1

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	1.10263	0.417
Mature Green Tomato/Ripe Tomato	N/A	N/A
Immature Eggplant/Mature Eggplant	1.4452	0.055
Ripe Pepper/Ripe Tomato	0.96477	1
Mature Eggplant/Ripe Tomato	1.31903	0.373

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.06589	1
1-1-2/M82	0.93249	1
12-2/M82	1.05629	1
12-4/M82	1.00776	1
1-3/M82	1.00595	1
2-1-1/M82	1.10896	0.764
2-1/M82	1.17671	0.345
2-6/M82	1.01545	1
3-2/M82	1.03547
4-1-1/M82	1.03965	1
4-1/M82	0.83404
4-3-2/M82	N/A	N/A
4-3/M82	1.02244	1
5-3/M82	1.01621	1
6-2/M82	1.0022	1
6-3/M82	1.01515	1
7-1/M82	0.93759	0.466
7-2/M82	1.04176	0.324
9-3-2/M82	N/A	N/A

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	N/A	N/A
IL2-6/WTpooled	N/A	N/A
IL7-5/WTpooled	N/A	N/A
IL7-3/WTpooled	N/A	N/A
IL12-4/WTpooled	N/A	N/A
IL1-4/WTpooled	N/A	N/A
WT/WTpooled	N/A	N/A

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	0.88902	0.75

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.01566	0.921
DC3000/delta hrp 6h	0.949	0.95
DC3000/delta hrp 12h	0.99777	1
DC3000/delta hrp 24h	0.98842	0.988

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.00351	1
DC3000 delta B/DC3000 delta AB	1.02799	0.614

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	1.11791	1
Exp 36h	1.62813	0.693
Exp 60h	1.25116	1

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

hybridization	ratio	FDR (corrected p value)
self-self	1.05461	1
Var 0h	1.09259	1
Var 12h I row2-row1	1.12705	0.198
Var 12h NI row2-row1	1.0275	1
Var 36h I row2-row1	1.05509	0.742
Var 36h NI row2-row1	0.94918	0.706
Var 60h I row2-row1	1.16995	1
Var 60h NI row2-row1	1.07463	1
Time course 0hI-0hNI	1.08641	0.799
Time course 12hI-12hNI	1.04028	0.747
Time course 36hI-36hNI	1.08941	0.355
Time course 60hI-60hNI	1.18938	0.025

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)	1.77611	0.305
transgenic ySAMdc/azygous control (breaker)	0.6639	0.251
transgenic ySAMdc/azygous control (red)	1.26326	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.06827	0.038

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.69363	0.238

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.94779	1
Manapal/WT (break)	2.12891	0.381
Manapal/WT (red)	1.12134	1