Tomato Functional Genomics Database (TFGD)

Expression of 1-1-7.2.13.5

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.35647	0.029
27DAP/17DAP	1.05268	0.892
39DAP/27DAP	0.887	0.573
41DAP/39DAP	1.41663	0.715
42DAP/41DAP	1.27057	0.507
43DAP/42DAP	1.36435	0.772
47DAP/43DAP	1.03988	0.809
52DAP/47DAP	0.71171	0.362
57DAP/52DAP	0.95145	0.949

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.13541	0.121
17DAP/reference	1.2647	0.066
27DAP/reference	0.98731	0.725
39DAP/reference	1.02743	0.842
41DAP/reference	1.12455	0.287
42DAP/reference	0.83922	0.011
43DAP/reference	1.02609	0.758
47DAP/reference	0.84967	0.007
52DAP/reference	0.87054	0.158
57DAP/reference	0.8136	0.015

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.58219	0.036
27DAP/17DAP	1.0303	0.951
39DAP/27DAP	0.9099	0.437
41DAP/39DAP	0.72656	0.228
42DAP/41DAP	0.96654	0.721
43DAP/42DAP	1.33313	0.25
47DAP/43DAP	1.03793	0.822
52DAP/47DAP	0.90918	0.512
57DAP/52DAP	0.9961	0.833
57DAP/7DAP	0.79255	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.11125	0.318
17DAP/reference	0.95511	0.295
27DAP/reference	0.88794	0.159
39DAP/reference	0.97727	0.411
41DAP/reference	1.16285	0.325
42DAP/reference	1.07971	0.534
43DAP/reference	0.9764	0.527
47DAP/reference	0.95705	0.671
52DAP/reference	0.89561	0.049
57DAP/reference	1.0383	1

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.35568	0.066
17DAP/reference	0.96567	0.548
27DAP/reference	0.86695	0.144
39DAP/reference	0.93733	0.257
41DAP/reference	0.83904	0.068
42DAP/reference	0.90095	0.212
43DAP/reference	1.01244	0.875
47DAP/reference	0.97616	0.473
52DAP/reference	0.9809	0.537
57DAP/reference	1.17606	0.626

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.0556	0.588
17DAP/reference	0.89869	0.167
27DAP/reference	0.96253	0.376
39DAP/reference	0.86443	0.054
41DAP/reference	0.81824	0.025
42DAP/reference	0.81328	0.041
43DAP/reference	0.76405	0.023
47DAP/reference	0.99609	0.687
52DAP/reference	0.9089	0.376
57DAP/reference	0.65182	0.02

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.95544	1
26DAP/20DAP	1.14317	0.534
34DAP/26DAP	1.09952	1
51DAP/34DAP	1.01015	0.957
52DAP/51DAP	0.93792	1
53DAP/52DAP	1.00873	0.944
55DAP/53DAP	1.04551	0.737
57DAP/55DAP	0.96695	0.821
62DAP/57DAP	1.223	0.115
68DAP/62DAP	1.60289	0.038
68DAP/14DAP	0.76353	0.121

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.77786	0.108

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	N/A	N/A
Mature Green Tomato/Ripe Tomato	N/A	N/A
Immature Eggplant/Mature Eggplant	N/A	N/A
Ripe Pepper/Ripe Tomato	N/A	N/A
Mature Eggplant/Ripe Tomato	44.7128	0.268

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	N/A	N/A
1-3/M82	0.78734
2-1-1/M82	N/A	N/A
2-1/M82	N/A	N/A
2-6/M82	1.14433	0.594
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	N/A	N/A
6-2/M82	0.71143
6-3/M82	1.0044	1
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	1.205	0.788
IL7-5/WTpooled	N/A	N/A
IL7-3/WTpooled	1.05317	1
IL12-4/WTpooled	1.24251	0.646
IL1-4/WTpooled	0.8733
WT/WTpooled	1.00697	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	0.63999

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.67554	0.921
DC3000/delta hrp 6h	0.91939	0.95
DC3000/delta hrp 12h	0.95748	1
DC3000/delta hrp 24h	1.05146	0.769

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	0.28864
DC3000 delta B/DC3000 delta AB	0.46879	0.02

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	0.86249	1
Exp 36h	1.01775	1
Exp 60h	0.80377	0.386

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

hybridization	ratio	FDR (corrected p value)
self-self	1.01065	1
Var 0h	0.92584	1
Var 12h I row2-row1	1.1815	0.272
Var 12h NI row2-row1	0.53505	0.25
Var 36h I row2-row1	0.70742	0.313
Var 36h NI row2-row1	0.88541	0.645
Var 60h I row2-row1	1.09431	0.487
Var 60h NI row2-row1	1.3362	0.904
Time course 0hI-0hNI	0.77236	0.045
Time course 12hI-12hNI	0.8826	0.54
Time course 36hI-36hNI	0.56792	0.05
Time course 60hI-60hNI	0.20191	0.007

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)	2.69612	0.571
transgenic ySAMdc/azygous control (breaker)	1.68996	1
transgenic ySAMdc/azygous control (red)	1.73881	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.94436	0.083

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.71665	0.238

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	N/A	N/A
Manapal/WT (break)	1.19821	0.381
Manapal/WT (red)	1.22763	0.413