Tomato Functional Genomics Database (TFGD)

Expression of 1-1-8.4.2.8

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.00431	0.951
27DAP/17DAP	0.77923	0.341
39DAP/27DAP	1.13916	0.765
41DAP/39DAP	0.82426	0.365
42DAP/41DAP	1.50163	0.366
43DAP/42DAP	0.96534	0.909
47DAP/43DAP	0.82159	0.462
52DAP/47DAP	0.67968	0.256
57DAP/52DAP	1.13862	0.993

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.37315	0.008
17DAP/reference	1.18054	0.166
27DAP/reference	0.99337	0.797
39DAP/reference	0.99994	0.975
41DAP/reference	1.00621	1
42DAP/reference	1.1328	0.125
43DAP/reference	1.07479	0.425
47DAP/reference	1.13165	0.005
52DAP/reference	1.02728	1
57DAP/reference	1.13142	0.259

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.3652	0.252
27DAP/17DAP	0.80558	0.339
39DAP/27DAP	0.82265	0.201
41DAP/39DAP	0.71751	0.154
42DAP/41DAP	1.19759	0.615
43DAP/42DAP	1.12658	0.273
47DAP/43DAP	0.76267	0.037
52DAP/47DAP	0.79101	0.284
57DAP/52DAP	0.67813	0.052
57DAP/7DAP	1.37804

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.98101	0.55
17DAP/reference	0.9137	0.518
27DAP/reference	0.91459
39DAP/reference	0.40065
41DAP/reference	0.87142	0.357
42DAP/reference	1.08241	1
43DAP/reference	0.9469	0.192
47DAP/reference	1.1315	0.139
52DAP/reference	1.41969	1
57DAP/reference	0.9985	0.775

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.3504	0.16
17DAP/reference	1.27422	0.098
27DAP/reference	1.11775	0.419
39DAP/reference	1.25491	0.077
41DAP/reference	1.25373	0.115
42DAP/reference	1.12519	0.061
43DAP/reference	1.21226	0.489
47DAP/reference	1.14267	0.247
52DAP/reference	1.14604	0.046
57DAP/reference	1.35293	0.155

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.67552	0.23
17DAP/reference	1.15864	0.699
27DAP/reference	0.70614
39DAP/reference	1.03017	0.813
41DAP/reference	1.14404	0.174
42DAP/reference	1.23637	0.49
43DAP/reference	1.43413	0.014
47DAP/reference	1.02632	0.792
52DAP/reference	1.01543	1
57DAP/reference	1.54354	0.02

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.3652	0.966
26DAP/20DAP	1.22494	0.647
34DAP/26DAP	0.94439	0.826
51DAP/34DAP	0.9019	0.667
52DAP/51DAP	0.98578	1
53DAP/52DAP	0.79474	0.402
55DAP/53DAP	2.62145	0.911
57DAP/55DAP	1.32303	0.779
62DAP/57DAP	1.28919	0.158
68DAP/62DAP	0.97738	0.863
68DAP/14DAP	1.62244	0.044

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.97299	0.635

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	0.55364	0.112
Mature Green Tomato/Ripe Tomato	2.19032	0.022
Immature Eggplant/Mature Eggplant	0.88137	0.063
Ripe Pepper/Ripe Tomato	3.63342	0.258
Mature Eggplant/Ripe Tomato	1.03333	1

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.25283	0.877
1-1-2/M82	1.43919	1
12-2/M82	1.15045	1
12-4/M82	0.63009	0.619
1-3/M82	1.56966	0.479
2-1-1/M82	0.72969	0.465
2-1/M82	0.80581	0.322
2-6/M82	1.92372	0.364
3-2/M82	1.22532	0.967
4-1-1/M82	1.45952	1
4-1/M82	1.39863	1
4-3-2/M82	1.65681	0.246
4-3/M82	1.34264	1
5-3/M82	0.65583	0.49
6-2/M82	2.1509	0.235
6-3/M82	1.05437	1
7-1/M82	1.01726	1
7-2/M82	1.23026	1
9-3-2/M82	1.69137	1

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	N/A	N/A
IL2-6/WTpooled	0.96741	1
IL7-5/WTpooled	N/A	N/A
IL7-3/WTpooled	1.15316	1
IL12-4/WTpooled	0.97854	1
IL1-4/WTpooled	0.87902
WT/WTpooled	0.93077	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	1.0715	0.853

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.00814	1
DC3000/delta hrp 6h	1.02683	1
DC3000/delta hrp 12h	1.30058	1
DC3000/delta hrp 24h	0.65965	0.034

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	0.2663
DC3000 delta B/DC3000 delta AB	0.86488	0.431

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	0.75915	1
Exp 36h	0.64587	0.456
Exp 60h	0.55993	0.249

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

hybridization	ratio	FDR (corrected p value)
self-self	1.03853	1
Var 0h	0.8589	0.291
Var 12h I row2-row1	0.94451	0.77
Var 12h NI row2-row1	0.88438	0.546
Var 36h I row2-row1	1.0107	1
Var 36h NI row2-row1	1.27576	1
Var 60h I row2-row1	0.88987
Var 60h NI row2-row1	0.9916	1
Time course 0hI-0hNI	0.945	0.577
Time course 12hI-12hNI	0.97356	0.836
Time course 36hI-36hNI	0.73235	0.027
Time course 60hI-60hNI	0.1848	0.006

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)	1.12779	0.297
transgenic ySAMdc/azygous control (breaker)	1.75653	0.162
transgenic ySAMdc/azygous control (red)	1.43291	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.0143	0.556

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.19633	0.277

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	4.61994	0.083
Manapal/WT (break)	3.61512	0.123
Manapal/WT (red)	3.78775	0.133