Tomato Functional Genomics Database (TFGD)

Expression of 1-1-2.4.19.10

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.02425	0.911
27DAP/17DAP	1.07893	0.89
39DAP/27DAP	1.40927	0.47
41DAP/39DAP	1.19643	0.806
42DAP/41DAP	0.8621	1
43DAP/42DAP	1.01844	0.937
47DAP/43DAP	1.10134	0.856
52DAP/47DAP	0.91827	0.721
57DAP/52DAP	0.89841	0.912

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.99065	0.756
17DAP/reference	1.07509	0.858
27DAP/reference	1.47441
39DAP/reference	0.89649	0.446
41DAP/reference	0.76546	0.031
42DAP/reference	1.16361	0.299
43DAP/reference	0.58639	0.04
47DAP/reference	1.10267	0.84
52DAP/reference	0.68585	0.091
57DAP/reference	N/A	N/A

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.18069	0.34
27DAP/17DAP	1.11352	0.751
39DAP/27DAP	1.07567	0.742
41DAP/39DAP	1.61826	0.043
42DAP/41DAP	0.75746	0.015
43DAP/42DAP	0.76975	0.038
47DAP/43DAP	0.97666	0.911
52DAP/47DAP	1.45025	0.108
57DAP/52DAP	1.43526	0.111
57DAP/7DAP	1.39557	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.36491	0.036
17DAP/reference	1.57084	0.006
27DAP/reference	1.51972	0.01
39DAP/reference	1.92723	0.007
41DAP/reference	2.2933	0.011
42DAP/reference	2.22542	0.006
43DAP/reference	1.85819	0.006
47DAP/reference	1.3648	0.155
52DAP/reference	1.70764	0.007
57DAP/reference	1.74724	0.004

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.6569	0.037
17DAP/reference	0.82053	0.058
27DAP/reference	0.71222	0.029
39DAP/reference	0.86524	0.289
41DAP/reference	1.11217	0.72
42DAP/reference	1.07604	1
43DAP/reference	0.83787	0.17
47DAP/reference	1.88586	0.274
52DAP/reference	0.75388	0.156
57DAP/reference	0.86845	0.318

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.45932	0.03
17DAP/reference	1.28201	0.496
27DAP/reference	1.74746	0.046
39DAP/reference	1.55388	0.004
41DAP/reference	1.99927	0.034
42DAP/reference	1.3903	0.016
43DAP/reference	1.36683	0.031
47DAP/reference	0.93805	0.465
52DAP/reference	1.90639	0.086
57DAP/reference	0.84945	0.238

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.44483
26DAP/20DAP	0.95411	1
34DAP/26DAP	1.7148	0.819
51DAP/34DAP	1.39542	0.032
52DAP/51DAP	1.82087	0.041
53DAP/52DAP	0.77284	0.138
55DAP/53DAP	1.37209	0.044
57DAP/55DAP	0.60085	0.079
62DAP/57DAP	1.29904	0.678
68DAP/62DAP	1.27228	0.962
68DAP/14DAP	N/A	N/A

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.62897	0.021

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	N/A	N/A
Mature Green Tomato/Ripe Tomato	1.05982	0.881
Immature Eggplant/Mature Eggplant	0.71336
Ripe Pepper/Ripe Tomato	0.60985
Mature Eggplant/Ripe Tomato	1.20973	1

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	0.97837
1-1-2/M82	N/A	N/A
12-2/M82	N/A	N/A
12-4/M82	1.17424
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	1.1867
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	1.06928	0.455
6-2/M82	N/A	N/A
6-3/M82	N/A	N/A
7-1/M82	N/A	N/A
7-2/M82	0.84823
9-3-2/M82	N/A	N/A

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	1.58833	0.277
IL2-6/WTpooled	0.78524	0.473
IL7-5/WTpooled	0.8668	1
IL7-3/WTpooled	1.36522
IL12-4/WTpooled	1.46497
IL1-4/WTpooled	0.95287	0.834
WT/WTpooled	1.13334	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	1.51773	0.193

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.93269	1
DC3000/delta hrp 6h	N/A	N/A
DC3000/delta hrp 12h	0.96944	1
DC3000/delta hrp 24h	0.89588	0.395

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.79758	0.053
DC3000 delta B/DC3000 delta AB	2.64841	0.046

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	1.0277	1
Var 0h	1.17936	0.936
Var 12h I row2-row1	0.93912	0.77
Var 12h NI row2-row1	1.79316	0.649
Var 36h I row2-row1	1.32637	1
Var 36h NI row2-row1	0.5841	0.549
Var 60h I row2-row1	0.67057	0.285
Var 60h NI row2-row1	0.6882	0.306
Time course 0hI-0hNI	1.0641	0.852
Time course 12hI-12hNI	1.41122	0.143
Time course 36hI-36hNI	7.96853	0.004
Time course 60hI-60hNI	50.4154	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)	N/A	N/A
transgenic ySAMdc/azygous control (breaker)	N/A	N/A
transgenic ySAMdc/azygous control (red)	0.52013	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.96651	0.552

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.49823	0.237

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)	N/A	N/A
Manapal/WT (red)	1.01606	1