Tomato Functional Genomics Database (TFGD)

Expression of 1-1-5.3.2.17

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.64792	0.067
27DAP/17DAP	0.93732	0.831
39DAP/27DAP	1.15032	0.823
41DAP/39DAP	1.03353	0.753
42DAP/41DAP	1.02382	1
43DAP/42DAP	0.92053	0.846
47DAP/43DAP	0.78647	0.345
52DAP/47DAP	1.05793	0.769
57DAP/52DAP	1.1188	1

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.05459	0.735
17DAP/reference	0.93993	0.393
27DAP/reference	1.01469	0.847
39DAP/reference	0.98138	0.75
41DAP/reference	0.90453	0.341
42DAP/reference	0.90682	0.029
43DAP/reference	0.99548	0.882
47DAP/reference	0.97963	0.366
52DAP/reference	1.12308	0.286
57DAP/reference	1.04834	0.621

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.92393	0.542
27DAP/17DAP	1.00211	0.969
39DAP/27DAP	0.91788	0.507
41DAP/39DAP	1.22218	0.763
42DAP/41DAP	0.99957	0.876
43DAP/42DAP	1.03563	1
47DAP/43DAP	0.98931	0.961
52DAP/47DAP	1.12423	0.718
57DAP/52DAP	1.0299	0.978
57DAP/7DAP	1.05431	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.07166	0.718
17DAP/reference	1.15611	0.092
27DAP/reference	0.93836	0.264
39DAP/reference	1.0686	0.819
41DAP/reference	0.98657	0.565
42DAP/reference	1.24567	0.132
43DAP/reference	1.12258	0.325
47DAP/reference	1.07237	0.761
52DAP/reference	0.93213	0.254
57DAP/reference	0.96982	0.443

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.25148	0.201
17DAP/reference	1.0132	0.999
27DAP/reference	1.11948	0.373
39DAP/reference	1.21565	0.141
41DAP/reference	0.9249	0.291
42DAP/reference	0.98387	0.355
43DAP/reference	1.08338	0.681
47DAP/reference	0.96333	0.39
52DAP/reference	1.10344	0.098
57DAP/reference	0.87047	0.107

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.17295	0.064
17DAP/reference	1.21943	0.148
27DAP/reference	1.10424	0.357
39DAP/reference	1.17974	0.043
41DAP/reference	1.02824	0.889
42DAP/reference	0.97421	0.671
43DAP/reference	1.06409	0.71
47DAP/reference	0.99359	0.593
52DAP/reference	0.91223	0.368
57DAP/reference	1.0472	0.706

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.12637	1
26DAP/20DAP	0.78424	0.512
34DAP/26DAP	0.81981	0.783
51DAP/34DAP	1.12312	0.936
52DAP/51DAP	1.28867	0.708
53DAP/52DAP	0.6426	0.21
55DAP/53DAP	1.09841	0.869
57DAP/55DAP	0.83313	0.391
62DAP/57DAP	1.00523	1
68DAP/62DAP	1.04005	1
68DAP/14DAP	1.43333	0.469

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.89198	0.443

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	N/A	N/A
Mature Green Tomato/Ripe Tomato	2.9482	0.015
Immature Eggplant/Mature Eggplant	N/A	N/A
Ripe Pepper/Ripe Tomato	N/A	N/A
Mature Eggplant/Ripe Tomato	0.48385

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	0.90009
1-1-2/M82	N/A	N/A
12-2/M82	N/A	N/A
12-4/M82	0.86085
1-3/M82	N/A	N/A
2-1-1/M82	1.24956
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	1.28816
5-3/M82	0.82676
6-2/M82	0.66062
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	1.2771	0.659
IL7-5/WTpooled	N/A	N/A
IL7-3/WTpooled	0.88365	1
IL12-4/WTpooled	1.04768	0.839
IL1-4/WTpooled	1.37905
WT/WTpooled	1.00152	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	0.77471	0.75

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.06037	0.921
DC3000/delta hrp 6h	1.05704	1
DC3000/delta hrp 12h	1.07435	1
DC3000/delta hrp 24h	0.94065	0.662

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	0.58451	0.093
DC3000 delta B/DC3000 delta AB	0.73401	0.558

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	0.84219	1
Exp 36h	0.93174	0.879
Exp 60h	0.87199	0.664

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

hybridization	ratio	FDR (corrected p value)
self-self	1.00854	1
Var 0h	0.9506	1
Var 12h I row2-row1	0.80744	0.39
Var 12h NI row2-row1	0.9172	0.627
Var 36h I row2-row1	0.90505	0.313
Var 36h NI row2-row1	1.80165	1
Var 60h I row2-row1	1.09432	0.271
Var 60h NI row2-row1	1.10117	0.904
Time course 0hI-0hNI	0.94002	0.595
Time course 12hI-12hNI	0.86317	0.037
Time course 36hI-36hNI	0.73305	0.023
Time course 60hI-60hNI	0.25929	0.005

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)	0.92891	0.306
transgenic ySAMdc/azygous control (breaker)	0.86837	0.142
transgenic ySAMdc/azygous control (red)	0.98181	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.94063	0.062

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.90076	0.241

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.8873	1
Manapal/WT (break)	0.88265	0.333
Manapal/WT (red)	1.30017	0.413