Tomato Functional Genomics Database (TFGD)

Expression of 1-1-5.2.2.5

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.91558	0.486
27DAP/17DAP	0.88338	0.725
39DAP/27DAP	1.84895	0.28
41DAP/39DAP	1.26167	0.27
42DAP/41DAP	1.42143	0.477
43DAP/42DAP	0.75217	0.649
47DAP/43DAP	1.22581	0.926
52DAP/47DAP	1.08315	0.865
57DAP/52DAP	1.93317	0.912

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.85978	0.054
17DAP/reference	0.87693	0.05
27DAP/reference	0.945	0.484
39DAP/reference	0.89845	0.056
41DAP/reference	0.7904	0.039
42DAP/reference	0.92757	0.034
43DAP/reference	0.9265	0.118
47DAP/reference	1.13959	0.009
52DAP/reference	0.99967	0.654
57DAP/reference	1.15906	0.027

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.12743	0.482
27DAP/17DAP	0.98384	0.943
39DAP/27DAP	0.98888	0.953
41DAP/39DAP	0.82448	0.246
42DAP/41DAP	0.92436	0.556
43DAP/42DAP	0.96361	0.751
47DAP/43DAP	0.88573	0.774
52DAP/47DAP	1.08061	0.819
57DAP/52DAP	1.04606	0.869
57DAP/7DAP	0.94706

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.76157	0.091
17DAP/reference	0.62646	0.018
27DAP/reference	1.11433
39DAP/reference	1.38733	0.062
41DAP/reference	1.11569	0.491
42DAP/reference	0.96964	0.482
43DAP/reference	1.00631	0.608
47DAP/reference	1.10794	0.776
52DAP/reference	1.10446	0.886
57DAP/reference	1.07026	0.799

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.98767	0.786
17DAP/reference	0.96058	0.378
27DAP/reference	1.08027	0.373
39DAP/reference	1.03918	0.935
41DAP/reference	1.10867	0.536
42DAP/reference	0.97156	0.482
43DAP/reference	0.91265	0.32
47DAP/reference	0.80604	0.023
52DAP/reference	1.07559	0.393
57DAP/reference	0.92856	0.02

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.26214	0.088
17DAP/reference	1.00061	0.839
27DAP/reference	1.16015	0.34
39DAP/reference	1.01481	1
41DAP/reference	1.29299	0.145
42DAP/reference	2.23252	0.556
43DAP/reference	1.56663	0.021
47DAP/reference	1.04111	0.731
52DAP/reference	1.11326	0.749
57DAP/reference	1.3088	0.029

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.16146	0.945
26DAP/20DAP	1.08944	0.953
34DAP/26DAP	1.94176	0.126
51DAP/34DAP	1.09957	0.898
52DAP/51DAP	0.94581	1
53DAP/52DAP	0.58573	0.245
55DAP/53DAP	1.02327	0.925
57DAP/55DAP	0.84652	0.452
62DAP/57DAP	1.55777	0.622
68DAP/62DAP	0.98782	0.834
68DAP/14DAP	0.94491	1

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.93895	0.358

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	0.85874	0.371
Mature Green Tomato/Ripe Tomato	0.82754	0.107
Immature Eggplant/Mature Eggplant	0.94327	0.72
Ripe Pepper/Ripe Tomato	1.62593	1
Mature Eggplant/Ripe Tomato	0.89573	1

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.17256	0.591
1-1-2/M82	0.95846
12-2/M82	0.96247	1
12-4/M82	1.01648	1
1-3/M82	1.56341	1
2-1-1/M82	1.94491
2-1/M82	N/A	N/A
2-6/M82	1.07516	0.425
3-2/M82	1.0807
4-1-1/M82	1.02735	1
4-1/M82	0.85449
4-3-2/M82	1.11701
4-3/M82	1.21014	1
5-3/M82	0.98529	1
6-2/M82	N/A	N/A
6-3/M82	1.13092	1
7-1/M82	1.46259	0.992
7-2/M82	1.11066	0.385
9-3-2/M82	0.9806

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	0.94423	1
IL12-4/WTpooled	N/A	N/A
IL1-4/WTpooled	0.9913	1
WT/WTpooled	0.89253	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	1.16919	0.853

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.01541	0.921
DC3000/delta hrp 6h	0.91934	0.95
DC3000/delta hrp 12h	0.9331	1
DC3000/delta hrp 24h	1.07661	0.582

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	0.90174	1
Exp 36h	1.00307	1
Exp 60h	1.00808	1

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

hybridization	ratio	FDR (corrected p value)
self-self	0.96458	1
Var 0h	0.58398	0.332
Var 12h I row2-row1	1.75165	0.58
Var 12h NI row2-row1	0.75223	1
Var 36h I row2-row1	0.58799	0.805
Var 36h NI row2-row1	1.88146	1
Var 60h I row2-row1	N/A	N/A
Var 60h NI row2-row1	1.26702	0.904
Time course 0hI-0hNI	0.94317	0.59
Time course 12hI-12hNI	0.90935	0.149
Time course 36hI-36hNI	0.69076	0.024
Time course 60hI-60hNI	0.45655	0.006

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)	1.20601	0.212
transgenic ySAMdc/azygous control (breaker)	1.2138	0.248
transgenic ySAMdc/azygous control (red)	1.03498	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.00504	0.687

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.47011	0.227

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.07528	0.307
Manapal/WT (break)	1.24004	0.183
Manapal/WT (red)	0.98504	0.863