Tomato Functional Genomics Database (TFGD)

Expression of 1-1-2.3.8.8

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.4314	0.709
27DAP/17DAP	1.05838	0.889
39DAP/27DAP	2.04846	0.068
41DAP/39DAP	0.90687	0.617
42DAP/41DAP	0.66236	0.262
43DAP/42DAP	1.13123	0.91
47DAP/43DAP	0.78222	0.308
52DAP/47DAP	2.13007	0.147
57DAP/52DAP	1.06956	0.996

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.1644	1
17DAP/reference	0.7604	0.111
27DAP/reference	0.96263	0.595
39DAP/reference	0.92256	0.36
41DAP/reference	0.48798	0.01
42DAP/reference	1.90029	0.001
43DAP/reference	1.49932	0.009
47DAP/reference	1.17463	0.071
52DAP/reference	1.11405	1
57DAP/reference	1.32984	0.091

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.71904	0.178
27DAP/17DAP	0.95562	0.782
39DAP/27DAP	1.46883	0.27
41DAP/39DAP	1.01662	0.747
42DAP/41DAP	1.62252	0.009
43DAP/42DAP	1.30671	0.052
47DAP/43DAP	1.06057	0.69
52DAP/47DAP	0.49387	0.034
57DAP/52DAP	1.18055	0.243
57DAP/7DAP	1.30723	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.7086	0.056
17DAP/reference	1.06908	0.328
27DAP/reference	1.93269	0.006
39DAP/reference	1.00732	0.745
41DAP/reference	1.74233	0.012
42DAP/reference	3.40398	0.007
43DAP/reference	4.81043	0.006
47DAP/reference	2.58092	0.032
52DAP/reference	2.4975	0.007
57DAP/reference	0.89458	0.28

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.13325	0.538
17DAP/reference	0.77028	0.052
27DAP/reference	1.96791	0.018
39DAP/reference	1.09601	0.556
41DAP/reference	1.15859	0.074
42DAP/reference	1.26995	0.108
43DAP/reference	0.56217	0.022
47DAP/reference	0.66135	0.026
52DAP/reference	0.36765	0.003
57DAP/reference	0.31863	0.002

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.2749	0.456
17DAP/reference	0.7361	0.144
27DAP/reference	1.32065	0.045
39DAP/reference	2.11821	0.033
41DAP/reference	1.49991	0.011
42DAP/reference	3.25328	0.007
43DAP/reference	2.83368	0.007
47DAP/reference	0.65211	0.012
52DAP/reference	1.70645	0.053
57DAP/reference	1.26616	0.113

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.77127	0.585
26DAP/20DAP	1.43584	0.273
34DAP/26DAP	0.83842	0.472
51DAP/34DAP	1.65204	0.026
52DAP/51DAP	0.65517	0.151
53DAP/52DAP	2.01795	0.027
55DAP/53DAP	0.60921	0.02
57DAP/55DAP	1.15698	0.826
62DAP/57DAP	0.55741	0.004
68DAP/62DAP	1.96453	0.012
68DAP/14DAP	2.38546	0.016

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	5.14631	0.014

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	0.63104	0.149
Mature Green Tomato/Ripe Tomato	0.73941	0.028
Immature Eggplant/Mature Eggplant	1.71813	0.05
Ripe Pepper/Ripe Tomato	0.80869	0.293
Mature Eggplant/Ripe Tomato	0.27163	0.234

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.2357	0.591
1-1-2/M82	1.15161	1
12-2/M82	1.0807	1
12-4/M82	1.23257	1
1-3/M82	2.67205	0.26
2-1-1/M82	0.87831	1
2-1/M82	0.83581	0.519
2-6/M82	1.08698	0.505
3-2/M82	1.1374	0.84
4-1-1/M82	1.37301	0.977
4-1/M82	1.36809	1
4-3-2/M82	1.47832	0.253
4-3/M82	1.05562	1
5-3/M82	1.04615	1
6-2/M82	1.27642	1
6-3/M82	0.91743	1
7-1/M82	1.08065	0.87
7-2/M82	1.42968	0.385
9-3-2/M82	1.88468	0.196

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	N/A	N/A
IL2-6/WTpooled	1.00706	1
IL7-5/WTpooled	N/A	N/A
IL7-3/WTpooled	1.05026	1
IL12-4/WTpooled	0.91083	0.71
IL1-4/WTpooled	1.05352	1
WT/WTpooled	0.91951	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	1.27011	0.699

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.98601	1
DC3000/delta hrp 6h	0.90266	0.95
DC3000/delta hrp 12h	1.08803	1
DC3000/delta hrp 24h	0.91879	0.438

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.08041	0.16
DC3000 delta B/DC3000 delta AB	1.10416	0.468

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	1.02161	1
Exp 36h	1.16573	0.693
Exp 60h	1.16192	0.563

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

hybridization	ratio	FDR (corrected p value)
self-self	1.02025	1
Var 0h	0.93226	0.933
Var 12h I row2-row1	0.93933	0.467
Var 12h NI row2-row1	1.11099	0.34
Var 36h I row2-row1	0.98275	1
Var 36h NI row2-row1	0.98416	0.852
Var 60h I row2-row1	0.99088	1
Var 60h NI row2-row1	0.93945	0.572
Time course 0hI-0hNI	1.14946	0.451
Time course 12hI-12hNI	1.03894	0.743
Time course 36hI-36hNI	1.03333	0.58
Time course 60hI-60hNI	1.71106	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)	1.1252	0.612
transgenic ySAMdc/azygous control (breaker)	0.87166	0.134
transgenic ySAMdc/azygous control (red)	0.99394	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.25934	0.071

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.04914	1

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.06503	1
Manapal/WT (break)	1.05768	1
Manapal/WT (red)	1.06475	1