Tomato Functional Genomics Database (TFGD)

Expression of 1-1-5.1.7.4

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.98115	0.788
27DAP/17DAP	1.10192	1
39DAP/27DAP	1.08996	0.84
41DAP/39DAP	1.10374	0.921
42DAP/41DAP	0.87235	1
43DAP/42DAP	1.07185	0.937
47DAP/43DAP	1.18863	0.776
52DAP/47DAP	1.03052	0.973
57DAP/52DAP	1.24619	0.98

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.14152	0.662
17DAP/reference	0.97834	0.567
27DAP/reference	0.97515	0.694
39DAP/reference	0.90142	0.146
41DAP/reference	0.88755	0.267
42DAP/reference	1.08591	0.264
43DAP/reference	1.03403	0.812
47DAP/reference	1.13396	0.329
52DAP/reference	1.05837	0.8
57DAP/reference	1.11595	0.662

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.05448	0.547
27DAP/17DAP	1.08508	0.706
39DAP/27DAP	0.96999	0.639
41DAP/39DAP	1.07782	0.774
42DAP/41DAP	1.11749	0.773
43DAP/42DAP	0.98948	0.96
47DAP/43DAP	0.97976	0.902
52DAP/47DAP	0.99056	0.962
57DAP/52DAP	0.99393	0.852
57DAP/7DAP	0.88776	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.87071	0.072
17DAP/reference	0.904	0.012
27DAP/reference	0.94485	0.171
39DAP/reference	0.8759	0.012
41DAP/reference	0.91433	0.049
42DAP/reference	0.91891	0.055
43DAP/reference	0.87865	0.031
47DAP/reference	0.94963	0.504
52DAP/reference	0.86327	0.013
57DAP/reference	0.85202	0.025

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.16091	0.741
17DAP/reference	1.0047	0.83
27DAP/reference	1.093	0.396
39DAP/reference	1.17927	0.15
41DAP/reference	1.12354	0.327
42DAP/reference	1.07245	0.519
43DAP/reference	1.04226	0.874
47DAP/reference	1.02961	0.695
52DAP/reference	1.11526	0.014
57DAP/reference	1.08281	0.296

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.84415	0.026
17DAP/reference	0.99176	0.778
27DAP/reference	0.87143	0.024
39DAP/reference	0.88104	0.01
41DAP/reference	0.92866	0.027
42DAP/reference	0.96416	0.671
43DAP/reference	1.05505	1
47DAP/reference	1.04186	0.443
52DAP/reference	0.88256	0.247
57DAP/reference	1.47822	0.029

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.99247	1
26DAP/20DAP	0.97428	1
34DAP/26DAP	1.0395	1
51DAP/34DAP	1.06284	0.581
52DAP/51DAP	1.10042	0.271
53DAP/52DAP	1.07827
55DAP/53DAP	0.95327	0.53
57DAP/55DAP	1.01595	0.97
62DAP/57DAP	1.06886
68DAP/62DAP	1.83309
68DAP/14DAP	1.39867

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.03219	0.865

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	1.06272	1
Mature Green Tomato/Ripe Tomato	N/A	N/A
Immature Eggplant/Mature Eggplant	1.37307	0.165
Ripe Pepper/Ripe Tomato	1.6493	1
Mature Eggplant/Ripe Tomato	2.88628	0.373

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	0.9323	0.944
1-1-2/M82	1.0159	1
12-2/M82	0.99267	1
12-4/M82	0.98964	1
1-3/M82	0.96896	0.441
2-1-1/M82	0.91874	0.784
2-1/M82	0.92748	0.74
2-6/M82	0.94702	1
3-2/M82	1.05017
4-1-1/M82	0.96767	1
4-1/M82	0.92963
4-3-2/M82	0.83764
4-3/M82	0.92267	0.72
5-3/M82	0.97861	1
6-2/M82	1.0664	1
6-3/M82	0.99849	1
7-1/M82	1.02401	0.539
7-2/M82	0.94237	0.881
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	0.49562
IL1-4/WTpooled	1.00017	1
WT/WTpooled	1.04492	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	0.90198	0.975

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.88429	0.839
DC3000/delta hrp 6h	1.16248	1
DC3000/delta hrp 12h	1.08457	1
DC3000/delta hrp 24h	0.97388	0.887

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	0.8729	0.027
DC3000 delta B/DC3000 delta AB	0.90051	0.297

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	0.98509	1
Var 0h	1.00242	1
Var 12h I row2-row1	0.9287	0.338
Var 12h NI row2-row1	0.94903	0.713
Var 36h I row2-row1	0.97713	1
Var 36h NI row2-row1	1.01057	1
Var 60h I row2-row1	0.85624	0.582
Var 60h NI row2-row1	1.08556	0.904
Time course 0hI-0hNI	0.99826	1
Time course 12hI-12hNI	1.01536	0.876
Time course 36hI-36hNI	0.87017	0.236
Time course 60hI-60hNI	0.69661	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)	0.8324	0.33
transgenic ySAMdc/azygous control (breaker)	1.82431	0.248
transgenic ySAMdc/azygous control (red)	1.48684	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.96417	0.105

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.09664	1

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.76312	1
Manapal/WT (break)	1.04523	1
Manapal/WT (red)	0.91818	0.863