Tomato Functional Genomics Database (TFGD)

Expression of 1-1-5.1.9.9

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.6921	0.077
27DAP/17DAP	2.09568	0.105
39DAP/27DAP	2.9187	0.225
41DAP/39DAP	1.1597	0.925
42DAP/41DAP	1.39933	0.485
43DAP/42DAP	1.17437	1
47DAP/43DAP	1.09948	0.746
52DAP/47DAP	0.64679	0.061
57DAP/52DAP	1.21014	0.948

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.37899	0.025
17DAP/reference	0.44983	0.009
27DAP/reference	0.47462	0.016
39DAP/reference	0.50424	0.015
41DAP/reference	0.52263	0.012
42DAP/reference	0.53516	0.001
43DAP/reference	0.94051	0.48
47DAP/reference	0.57875	0.001
52DAP/reference	0.47706	0.022
57DAP/reference	0.63893	0.014

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.61822	0.051
27DAP/17DAP	1.13033	0.73
39DAP/27DAP	1.21502	0.383
41DAP/39DAP	2.70841	0.006
42DAP/41DAP	0.87092	0.161
43DAP/42DAP	0.45802	0.025
47DAP/43DAP	1.61729	0.017
52DAP/47DAP	0.98026	0.925
57DAP/52DAP	0.83737	0.395
57DAP/7DAP	1.61584	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.54454	0.056
17DAP/reference	0.55238	0.011
27DAP/reference	0.77904	0.094
39DAP/reference	0.72759	0.031
41DAP/reference	0.58961	0.018
42DAP/reference	0.697	0.044
43DAP/reference	0.63373	0.011
47DAP/reference	0.55285	0.03
52DAP/reference	0.75161	0.017
57DAP/reference	0.66345	0.009

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.42489	0.006
17DAP/reference	0.34044	0.003
27DAP/reference	0.44325	0.007
39DAP/reference	0.47971	0.01
41DAP/reference	0.43394	0.005
42DAP/reference	0.55942	0.012
43DAP/reference	0.74114	0.064
47DAP/reference	0.63245	0.011
52DAP/reference	0.22505	0.007
57DAP/reference	0.78057	0.046

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.56687	0.032
17DAP/reference	0.54763	0.062
27DAP/reference	0.56706	0.021
39DAP/reference	0.62883	0.024
41DAP/reference	0.69043	0.167
42DAP/reference	0.5187	0.02
43DAP/reference	0.60735	0.023
47DAP/reference	0.36085	0.004
52DAP/reference	0.97701	0.415
57DAP/reference	0.83552	0.165

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.46508	0.021
26DAP/20DAP	0.93161	0.512
34DAP/26DAP	0.86014	0.596
51DAP/34DAP	0.82726	0.323
52DAP/51DAP	0.87085	1
53DAP/52DAP	1.17822	0.688
55DAP/53DAP	1.00082	0.864
57DAP/55DAP	1.3697	0.764
62DAP/57DAP	1.00324	1
68DAP/62DAP	0.85284	0.609
68DAP/14DAP	0.94831	0.375

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	2.27816	0.014

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	0.20626	0.059
Mature Green Tomato/Ripe Tomato	1.14399	0.814
Immature Eggplant/Mature Eggplant	4.56201	0.05
Ripe Pepper/Ripe Tomato	4.27789	0.256
Mature Eggplant/Ripe Tomato	0.96588	1

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	0.41152	0.536
1-1-2/M82	0.96285	1
12-2/M82	1.05724	1
12-4/M82	0.82224	0.619
1-3/M82	4.01457	0.248
2-1-1/M82	N/A	N/A
2-1/M82	4.22864
2-6/M82	1.25947
3-2/M82	2.48921
4-1-1/M82	1.19583
4-1/M82	1.12892	1
4-3-2/M82	2.52427
4-3/M82	0.78909	0.72
5-3/M82	1.72532	0.496
6-2/M82	5.74571	0.203
6-3/M82	1.07156	1
7-1/M82	1.22799	1
7-2/M82	2.11273	0.324
9-3-2/M82	0.76641	1

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	1.20067	0.277
IL2-6/WTpooled	1.18627	0.427
IL7-5/WTpooled	1.0404	1
IL7-3/WTpooled	1.06282	1
IL12-4/WTpooled	1.10255	0.737
IL1-4/WTpooled	1.01926	1
WT/WTpooled	0.95541	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	1.101	1

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.11903	0.875
DC3000/delta hrp 6h	1.01245	1
DC3000/delta hrp 12h	1.1449	1
DC3000/delta hrp 24h	1.77724	0.037

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	2.06066	0.048
DC3000 delta B/DC3000 delta AB	4.07513	0.023

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	1.60072	0.254
Exp 36h	1.77688	0.489
Exp 60h	2.76346	0.237

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

hybridization	ratio	FDR (corrected p value)
self-self	1.00561	1
Var 0h	2.62821	0.936
Var 12h I row2-row1	0.93022	0.77
Var 12h NI row2-row1	1.69656	0.34
Var 36h I row2-row1	1.43091	0.489
Var 36h NI row2-row1	0.57601	0.478
Var 60h I row2-row1	0.89409	0.582
Var 60h NI row2-row1	0.64693	0.313
Time course 0hI-0hNI	1.42818	0.323
Time course 12hI-12hNI	1.14989	0.747
Time course 36hI-36hNI	3.6741	0.004
Time course 60hI-60hNI	31.7296	0.008

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)	1.36623	0.541
transgenic ySAMdc/azygous control (breaker)	0.96679	1
transgenic ySAMdc/azygous control (red)	0.66323	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.95834	0.156

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.80633	0.241

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	6.40437	0.083
Manapal/WT (break)	2.8674	0.381
Manapal/WT (red)	0.67497	0.216