Tomato Functional Genomics Database (TFGD)

Expression of 1-1-7.2.5.7

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.09867	1
27DAP/17DAP	1.54025	0.845
39DAP/27DAP	1.04672	1
41DAP/39DAP	0.92967	0.735
42DAP/41DAP	1.04331	1
43DAP/42DAP	1.24782	0.726
47DAP/43DAP	0.95555	0.64
52DAP/47DAP	1.17184	0.821
57DAP/52DAP	0.98317	0.971

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.76391	0.083
17DAP/reference	0.73823	0.008
27DAP/reference	0.87721	0.295
39DAP/reference	1.0029	0.874
41DAP/reference	0.86375	0.085
42DAP/reference	0.87788	0.088
43DAP/reference	0.91598	0.08
47DAP/reference	0.85022	0.083
52DAP/reference	0.88539	0.172
57DAP/reference	1.09995	0.392

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.22969	0.356
27DAP/17DAP	0.97039	0.887
39DAP/27DAP	0.82492	0.204
41DAP/39DAP	0.92351	0.822
42DAP/41DAP	1.08584	0.886
43DAP/42DAP	1.15396	0.627
47DAP/43DAP	0.932	0.588
52DAP/47DAP	1.12543	0.666
57DAP/52DAP	1.06723	0.8
57DAP/7DAP	1.47395

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.77971	0.115
17DAP/reference	0.73918	0.011
27DAP/reference	0.66796	0.01
39DAP/reference	0.71174	0.011
41DAP/reference	0.71113	0.014
42DAP/reference	0.70369	0.028
43DAP/reference	0.62204	0.011
47DAP/reference	0.6899	0.038
52DAP/reference	0.72691	0.015
57DAP/reference	0.77836	0.028

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.75037	0.026
17DAP/reference	0.73604	0.021
27DAP/reference	0.79586	0.069
39DAP/reference	0.75393	0.076
41DAP/reference	0.78708	0.066
42DAP/reference	0.88728	0.169
43DAP/reference	0.91013	0.292
47DAP/reference	0.81674	0.04
52DAP/reference	0.8026	0.086
57DAP/reference	0.76792	0.009

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.64802	0.039
17DAP/reference	0.8121	0.144
27DAP/reference	0.56948	0.023
39DAP/reference	0.5835	0.006
41DAP/reference	0.74807	0.023
42DAP/reference	0.68984	0.108
43DAP/reference	0.82063	0.035
47DAP/reference	0.7372	0.093
52DAP/reference	0.52648	0.064
57DAP/reference	0.88472	0.191

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.20086	0.966
26DAP/20DAP	0.95992	1
34DAP/26DAP	1.3036	0.819
51DAP/34DAP	1.95708	0.043
52DAP/51DAP	0.75795	1
53DAP/52DAP	1.64862	0.083
55DAP/53DAP	1.31356	0.22
57DAP/55DAP	1.1317	0.947
62DAP/57DAP	1.23742	0.833
68DAP/62DAP	0.49332
68DAP/14DAP	0.76363	0.075

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.49496	0.026

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	N/A	N/A
Mature Green Tomato/Ripe Tomato	1.27383	0.814
Immature Eggplant/Mature Eggplant	N/A	N/A
Ripe Pepper/Ripe Tomato	N/A	N/A
Mature Eggplant/Ripe Tomato	N/A	N/A

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	N/A	N/A
1-1-2/M82	N/A	N/A
12-2/M82	N/A	N/A
12-4/M82	1.04862
1-3/M82	N/A	N/A
2-1-1/M82	N/A	N/A
2-1/M82	N/A	N/A
2-6/M82	N/A	N/A
3-2/M82	N/A	N/A
4-1-1/M82	N/A	N/A
4-1/M82	N/A	N/A
4-3-2/M82	N/A	N/A
4-3/M82	N/A	N/A
5-3/M82	1.16748
6-2/M82	N/A	N/A
6-3/M82	N/A	N/A
7-1/M82	N/A	N/A
7-2/M82	N/A	N/A
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	0.85307
IL7-5/WTpooled	N/A	N/A
IL7-3/WTpooled	0.95738	1
IL12-4/WTpooled	0.80186	0.71
IL1-4/WTpooled	1.1027	1
WT/WTpooled	1.1077	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	1.02951	1

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.91157	1
DC3000/delta hrp 6h	N/A	N/A
DC3000/delta hrp 12h	1.14279	1
DC3000/delta hrp 24h	0.98796	0.988

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	0.52046
DC3000 delta B/DC3000 delta AB	1.77752	0.363

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	N/A	N/A
Exp 36h	N/A	N/A
Exp 60h	N/A	N/A

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

hybridization	ratio	FDR (corrected p value)
self-self	0.99144	1
Var 0h	0.81683	0.311
Var 12h I row2-row1	0.99089	1
Var 12h NI row2-row1	0.73874	0.906
Var 36h I row2-row1	0.88463	0.805
Var 36h NI row2-row1	1.60136	0.482
Var 60h I row2-row1	1.09731
Var 60h NI row2-row1	1.1801	0.904
Time course 0hI-0hNI	0.95335	0.721
Time course 12hI-12hNI	0.97988	0.87
Time course 36hI-36hNI	0.77984	0.068
Time course 60hI-60hNI	0.42917	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)	N/A	N/A
transgenic ySAMdc/azygous control (breaker)	0.94636	1
transgenic ySAMdc/azygous control (red)	N/A	N/A

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.01162	0.854

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.75092	0.284

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.44358	0.093
Manapal/WT (break)	0.88373	1
Manapal/WT (red)	1.28514	0.222