Tomato Functional Genomics Database (TFGD)

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Expression of 1-1-4.1.14.13

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.06408	1
27DAP/17DAP	1.08518	0.872
39DAP/27DAP	2.38822	0.038
41DAP/39DAP	0.76332	0.196
42DAP/41DAP	1.1879	0.974
43DAP/42DAP	1.29061	0.999
47DAP/43DAP	1.48864	0.412
52DAP/47DAP	2.5855	0.104
57DAP/52DAP	1.35438	0.946

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.15576	0.35
17DAP/reference	0.89623	0.194
27DAP/reference	1.01241	1
39DAP/reference	0.9533	0.587
41DAP/reference	0.8866	0.267
42DAP/reference	1.12299	0.151
43DAP/reference	0.99232	0.763
47DAP/reference	1.94801	0.001
52DAP/reference	3.03952	0.007
57DAP/reference	1.5326	0.011

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.80202	0.09
27DAP/17DAP	1.30769	0.112
39DAP/27DAP	0.92501	0.54
41DAP/39DAP	1.11954	1
42DAP/41DAP	1.2544	0.084
43DAP/42DAP	1.63779	0.035
47DAP/43DAP	1.03564	0.884
52DAP/47DAP	1.05618	0.965
57DAP/52DAP	1.69122	0.036
57DAP/7DAP	1.83046	0.365

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.18731	0.311
17DAP/reference	0.93476	0.082
27DAP/reference	0.85222	0.019
39DAP/reference	0.73309	0.013
41DAP/reference	0.84585	0.133
42DAP/reference	0.91246	0.07
43DAP/reference	1.25582	0.066
47DAP/reference	1.22708	0.155
52DAP/reference	0.98039	0.523
57DAP/reference	0.93467	0.314

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.02894	0.926
17DAP/reference	1.07532	0.92
27DAP/reference	1.3957	0.139
39DAP/reference	1.16996	0.346
41DAP/reference	1.13276	0.614
42DAP/reference	1.18181	0.39
43DAP/reference	0.86878	0.175
47DAP/reference	1.06405	0.291
52DAP/reference	0.99046	0.619
57DAP/reference	1.00922	0.874

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.97562	0.489
17DAP/reference	0.89191	0.313
27DAP/reference	0.84978	0.069
39DAP/reference	0.86526	0.037
41DAP/reference	0.79532	0.086
42DAP/reference	1.12626	0.556
43DAP/reference	1.45423	0.008
47DAP/reference	1.45277	0.016
52DAP/reference	2.41424	0.028
57DAP/reference	3.0197	0.005

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.2767	0.966
26DAP/20DAP	1.7755	0.145
34DAP/26DAP	0.92406	0.861
51DAP/34DAP	1.63205	0.034
52DAP/51DAP	1.15344	0.431
53DAP/52DAP	1.03805	0.783
55DAP/53DAP	0.75425	0.026
57DAP/55DAP	1.04688	0.938
62DAP/57DAP	1.10873	0.515
68DAP/62DAP	0.80195	0.378
68DAP/14DAP	1.50262	0.053

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	2.93062	0.014

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	0.61776	0.146
Mature Green Tomato/Ripe Tomato	0.42323	0.027
Immature Eggplant/Mature Eggplant	0.83623	0.092
Ripe Pepper/Ripe Tomato	0.25113	0.224
Mature Eggplant/Ripe Tomato	0.32987	0.234

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	0.9606	N/A
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	N/A	N/A
4-1-1/M82	N/A	N/A
4-1/M82	N/A	N/A
4-3-2/M82	1.11302	N/A
4-3/M82	N/A	N/A
5-3/M82	N/A	N/A
6-2/M82	N/A	N/A
6-3/M82	N/A	N/A
7-1/M82	0.93245	N/A
7-2/M82	N/A	N/A
9-3-2/M82	1.64702	N/A

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	1.14223	0.365
IL2-6/WTpooled	0.68937	0.358
IL7-5/WTpooled	1.19272	0.792
IL7-3/WTpooled	1.12669	1
IL12-4/WTpooled	1.08558	0.546
IL1-4/WTpooled	0.94764	0.834
WT/WTpooled	1.01852	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	1.01256	1

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	N/A	N/A
DC3000/delta hrp 6h	0.9826	0.95
DC3000/delta hrp 12h	1.22748	1
DC3000/delta hrp 24h	0.74187	0.422

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.40604	0.042
DC3000 delta B/DC3000 delta AB	1.38378	0.119

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	1.10124	1
Exp 36h	1.13652	1
Exp 60h	1.12817	0.283

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

hybridization	ratio	FDR (corrected p value)
self-self	1.00369	1
Var 0h	1.02765	0.98
Var 12h I row2-row1	1.15222	0.613
Var 12h NI row2-row1	1.1465	0.281
Var 36h I row2-row1	0.93782	1
Var 36h NI row2-row1	0.90137	0.329
Var 60h I row2-row1	0.77153	0.439
Var 60h NI row2-row1	0.94693	0.818
Time course 0hI-0hNI	1.01048	0.867
Time course 12hI-12hNI	1.01677	0.811
Time course 36hI-36hNI	1.43743	0.005
Time course 60hI-60hNI	4.5149	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)	1.17312	0.326
transgenic ySAMdc/azygous control (breaker)	0.86453	0.49
transgenic ySAMdc/azygous control (red)	1.03441	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.96431	0.362

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.10151	0.277

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.02882	1
Manapal/WT (break)	1.36966	0.381
Manapal/WT (red)	1.34449	1