Tomato Functional Genomics Database (TFGD)

Expression of 1-1-7.3.10.11

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.0191	1
27DAP/17DAP	0.82827	0.523
39DAP/27DAP	1.04851	1
41DAP/39DAP	0.86724	0.483
42DAP/41DAP	1.01021	1
43DAP/42DAP	0.75195	0.551
47DAP/43DAP	0.92494	0.716
52DAP/47DAP	1.0879	0.856
57DAP/52DAP	0.8982	0.666

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.09318	0.265
17DAP/reference	1.01311	0.764
27DAP/reference	0.88935	0.471
39DAP/reference	1.10874	0.534
41DAP/reference	0.97886	0.667
42DAP/reference	0.81587	0.062
43DAP/reference	1.1139	0.269
47DAP/reference	0.96138	0.392
52DAP/reference	0.96033	0.438
57DAP/reference	0.90909	0.221

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.03736	0.699
27DAP/17DAP	1.04494	0.867
39DAP/27DAP	0.8895	0.269
41DAP/39DAP	1.01978	1
42DAP/41DAP	0.99701	0.894
43DAP/42DAP	1.18156	0.122
47DAP/43DAP	0.95851	0.815
52DAP/47DAP	0.93355	0.686
57DAP/52DAP	0.85292	0.267
57DAP/7DAP	1.19705	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.32401	0.033
17DAP/reference	1.41662	0.092
27DAP/reference	1.37614	0.023
39DAP/reference	1.53875	0.009
41DAP/reference	1.58415	0.025
42DAP/reference	1.31485	0.024
43DAP/reference	1.64859	0.008
47DAP/reference	1.30372	0.292
52DAP/reference	1.65257	0.007
57DAP/reference	1.73225	0.004

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.11231	0.634
17DAP/reference	1.02427	1
27DAP/reference	1.10173	0.507
39DAP/reference	1.08291	0.783
41DAP/reference	1.18002	0.893
42DAP/reference	1.30972	0.013
43DAP/reference	1.13936	0.352
47DAP/reference	1.14608	0.498
52DAP/reference	0.88888	0.027
57DAP/reference	0.88932	0.226

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.31966	0.039
17DAP/reference	1.21248	0.317
27DAP/reference	1.51962	0.021
39DAP/reference	1.30047	0.011
41DAP/reference	1.37176	0.019
42DAP/reference	1.21957	0.111
43DAP/reference	1.03051	0.894
47DAP/reference	1.00314	0.687
52DAP/reference	1.22261	0.198
57DAP/reference	0.98111	0.602

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.89296	0.997
26DAP/20DAP	1.25688	0.33
34DAP/26DAP	1.04246	1
51DAP/34DAP	1.08941	0.775
52DAP/51DAP	1.2474	0.253
53DAP/52DAP	1.49835	0.068
55DAP/53DAP	1.31334	0.144
57DAP/55DAP	0.75822	0.113
62DAP/57DAP	0.95295	0.871
68DAP/62DAP	0.92533	0.769
68DAP/14DAP	1.2188	0.694

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.63145	0.045

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	0.08896	0.067
Mature Green Tomato/Ripe Tomato	2.84535	0.032
Immature Eggplant/Mature Eggplant	N/A	N/A
Ripe Pepper/Ripe Tomato	8.91778	0.233
Mature Eggplant/Ripe Tomato	N/A	N/A

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	1.00456
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	N/A	N/A
4-3/M82	N/A	N/A
5-3/M82	0.84128
6-2/M82	N/A	N/A
6-3/M82	N/A	N/A
7-1/M82	N/A	N/A
7-2/M82	N/A	N/A
9-3-2/M82	N/A	N/A

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	1.33517	0.277
IL2-6/WTpooled	0.95072	1
IL7-5/WTpooled	N/A	N/A
IL7-3/WTpooled	0.97167	1
IL12-4/WTpooled	1.01078	1
IL1-4/WTpooled	1.20206	1
WT/WTpooled	0.96338	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	1.0858	0.479

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.96967	1
DC3000/delta hrp 6h	0.72994	0.942
DC3000/delta hrp 12h	1.04454	1
DC3000/delta hrp 24h	1.20257	0.165

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.16599	0.313
DC3000 delta B/DC3000 delta AB	1.2247	0.166

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	1.35347	1
Exp 36h	1.35333	1
Exp 60h	1.17532	0.563

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

hybridization	ratio	FDR (corrected p value)
self-self	0.97663	1
Var 0h	0.54852	0.374
Var 12h I row2-row1	0.93235	0.514
Var 12h NI row2-row1	1.13645	0.281
Var 36h I row2-row1	1.1432	0.309
Var 36h NI row2-row1	0.93588	0.382
Var 60h I row2-row1	0.79375	0.439
Var 60h NI row2-row1	0.90247	0.818
Time course 0hI-0hNI	1.05431	0.764
Time course 12hI-12hNI	1.01387	0.827
Time course 36hI-36hNI	1.1175	0.08
Time course 60hI-60hNI	1.35227	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)	1.08233	0.455
transgenic ySAMdc/azygous control (breaker)	0.88417	0.251
transgenic ySAMdc/azygous control (red)	1.10273	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.96661	0.09

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.47944	0.238

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	3.24768	0.093
Manapal/WT (break)	1.33803	1
Manapal/WT (red)	1.78066	0.126