Tomato Functional Genomics Database (TFGD)

Expression of 1-1-8.1.19.2

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.71461	0.123
27DAP/17DAP	1.43064	0.839
39DAP/27DAP	0.84731	0.564
41DAP/39DAP	1.23104	0.788
42DAP/41DAP	0.99632	1
43DAP/42DAP	1.24601	0.848
47DAP/43DAP	1.36491	0.555
52DAP/47DAP	1.17262	0.641
57DAP/52DAP	1.20924	0.977

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.85892	0.194
17DAP/reference	1.12583	0.172
27DAP/reference	1.0413	0.612
39DAP/reference	0.91247	0.234
41DAP/reference	0.92801	0.434
42DAP/reference	0.87395	0.02
43DAP/reference	1.01988	0.924
47DAP/reference	0.91101	0.006
52DAP/reference	0.91887	0.244
57DAP/reference	0.8508	0.106

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.23839	0.208
27DAP/17DAP	1.25677	0.381
39DAP/27DAP	0.974	0.732
41DAP/39DAP	0.86204	0.696
42DAP/41DAP	0.87012	0.179
43DAP/42DAP	0.8847	0.466
47DAP/43DAP	1.17516	0.508
52DAP/47DAP	1.05123	0.939
57DAP/52DAP	1.22455	0.286
57DAP/7DAP	2.47748	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.89418	0.06
17DAP/reference	0.84767	0.012
27DAP/reference	0.76095	0.01
39DAP/reference	0.82096	0.011
41DAP/reference	0.83433	0.043
42DAP/reference	0.86852	0.066
43DAP/reference	0.86071	0.023
47DAP/reference	1.03406	0.915
52DAP/reference	0.89527	0.213
57DAP/reference	0.95637	0.341

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.94344	0.374
17DAP/reference	0.76565	0.006
27DAP/reference	0.78715	0.071
39DAP/reference	0.86414	0.087
41DAP/reference	0.79158	0.177
42DAP/reference	0.91007	0.135
43DAP/reference	0.85793	0.147
47DAP/reference	0.95539	0.311
52DAP/reference	0.90267	0.121
57DAP/reference	0.8148	0.007

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.8562	0.087
17DAP/reference	0.85082	0.144
27DAP/reference	0.68631	0.133
39DAP/reference	0.72354	0.012
41DAP/reference	0.89212	0.119
42DAP/reference	0.72053	0.015
43DAP/reference	0.72867	0.048
47DAP/reference	0.95278	0.434
52DAP/reference	0.75587	0.137
57DAP/reference	0.84976	0.138

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.10516	0.966
26DAP/20DAP	1.86302	0.144
34DAP/26DAP	1.00142	1
51DAP/34DAP	0.84749	0.112
52DAP/51DAP	1.22229	0.783
53DAP/52DAP	0.97376	0.848
55DAP/53DAP	0.82443	0.5
57DAP/55DAP	1.18381	0.915
62DAP/57DAP	1.93036	0.515
68DAP/62DAP	0.97953	0.834
68DAP/14DAP	1.02888	1

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.55595	0.022

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	1.05672	1
Mature Green Tomato/Ripe Tomato	N/A	N/A
Immature Eggplant/Mature Eggplant	1.20197
Ripe Pepper/Ripe Tomato	0.87098	1
Mature Eggplant/Ripe Tomato	0.34388	1

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	0.95557
1-1-2/M82	1.14468
12-2/M82	N/A	N/A
12-4/M82	1.10354	1
1-3/M82	0.9602
2-1-1/M82	0.97898	1
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	0.83936
4-3/M82	N/A	N/A
5-3/M82	1.09273	1
6-2/M82	1.08181	1
6-3/M82	0.983	1
7-1/M82	N/A	N/A
7-2/M82	0.82111	0.796
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	N/A	N/A
IL1-4/WTpooled	N/A	N/A
WT/WTpooled	N/A	N/A

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	1.06491	1

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.11006	0.914
DC3000/delta hrp 6h	0.98247	0.95
DC3000/delta hrp 12h	1.19134	1
DC3000/delta hrp 24h	1.07047	0.553

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.61089
DC3000 delta B/DC3000 delta AB	0.79773	0.223

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	N/A	N/A
Exp 36h	1.05271	1
Exp 60h	1.15219	0.563

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

hybridization	ratio	FDR (corrected p value)
self-self	0.93768	1
Var 0h	0.81737	1
Var 12h I row2-row1	0.9661	0.948
Var 12h NI row2-row1	0.91352	0.713
Var 36h I row2-row1	1.22504	1
Var 36h NI row2-row1	0.84254	0.645
Var 60h I row2-row1	0.89236	0.582
Var 60h NI row2-row1	1.13168	0.904
Time course 0hI-0hNI	1.11448	0.662
Time course 12hI-12hNI	0.99936	1
Time course 36hI-36hNI	1.07425	0.513
Time course 60hI-60hNI	1.92737	0.096

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)	0.88261	0.377
transgenic ySAMdc/azygous control (breaker)	0.79505	0.173
transgenic ySAMdc/azygous control (red)	0.90353	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.02365	0.247

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.03365	1

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)	0.68947	0.333
Manapal/WT (red)	1.19356	0.134