Tomato Functional Genomics Database (TFGD)

Expression of 1-1-7.1.18.2

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.11754	0.838
27DAP/17DAP	0.83017	0.571
39DAP/27DAP	0.84778	0.549
41DAP/39DAP	0.6058	0.045
42DAP/41DAP	0.94211	1
43DAP/42DAP	0.77312	0.589
47DAP/43DAP	1.47451	0.278
52DAP/47DAP	1.38095	0.371
57DAP/52DAP	0.98593	0.971

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.57421	0.012
17DAP/reference	1.11831	0.064
27DAP/reference	1.00877	0.981
39DAP/reference	0.98724	0.816
41DAP/reference	0.94013	0.201
42DAP/reference	1.51902	0.001
43DAP/reference	0.99999	0.924
47DAP/reference	1.2058	0.006
52DAP/reference	0.97008	0.393
57DAP/reference	1.02464	1

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.78397	0.178
27DAP/17DAP	0.89104	0.446
39DAP/27DAP	1.25837	0.581
41DAP/39DAP	3.07932	0.006
42DAP/41DAP	0.53785	0.007
43DAP/42DAP	0.99367	0.928
47DAP/43DAP	1.70835	0.017
52DAP/47DAP	1.02227	0.93
57DAP/52DAP	1.55045	0.078
57DAP/7DAP	1.10627	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	2.50552	0.024
17DAP/reference	2.15754	0.006
27DAP/reference	1.22663	0.035
39DAP/reference	1.84938	0.006
41DAP/reference	1.85141	0.014
42DAP/reference	1.90468	0.046
43DAP/reference	2.23259	0.006
47DAP/reference	1.74931	0.014
52DAP/reference	3.30431	0.007
57DAP/reference	3.41901	0.004

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.64848	0.139
17DAP/reference	1.6269	0.007
27DAP/reference	1.2168	0.049
39DAP/reference	1.74199	0.011
41DAP/reference	1.49699	0.007
42DAP/reference	1.33664	0.015
43DAP/reference	1.40156	0.087
47DAP/reference	1.4947	0.008
52DAP/reference	1.3015	0.006
57DAP/reference	1.75453	0.007

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	2.20172	0.015
17DAP/reference	1.17721	0.221
27DAP/reference	1.55267	0.059
39DAP/reference	1.46539	0.017
41DAP/reference	1.04171	0.588
42DAP/reference	0.83384	0.172
43DAP/reference	1.20934	0.139
47DAP/reference	1.28867	0.01
52DAP/reference	1.86662	0.155
57DAP/reference	2.40198	0.006

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.8662	0.89
26DAP/20DAP	0.75072	0.512
34DAP/26DAP	1.70876	0.542
51DAP/34DAP	1.08315	0.829
52DAP/51DAP	1.16842	0.708
53DAP/52DAP	1.21362	1
55DAP/53DAP	0.74066	0.14
57DAP/55DAP	1.2613	0.915
62DAP/57DAP	1.08451	0.767
68DAP/62DAP	0.90015	0.747
68DAP/14DAP	0.82973	0.375

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	2.14662	0.023

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	3.97986	0.058
Mature Green Tomato/Ripe Tomato	0.43116	0.018
Immature Eggplant/Mature Eggplant	0.52289	0.062
Ripe Pepper/Ripe Tomato	0.07684	0.224
Mature Eggplant/Ripe Tomato	0.18166	0.234

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	0.70542	0.503
1-1-2/M82	1.03837	1
12-2/M82	1.25623	1
12-4/M82	0.91134	1
1-3/M82	2.16815	0.248
2-1-1/M82	1.8984	0.689
2-1/M82	1.78848	1
2-6/M82	1.63897	0.505
3-2/M82	1.33502	0.967
4-1-1/M82	2.4054	0.968
4-1/M82	1.18465	0.853
4-3-2/M82	1.75632	0.246
4-3/M82	1.93235	1
5-3/M82	0.66623	0.447
6-2/M82	1.63099	0.253
6-3/M82	1.23542	1
7-1/M82	1.05432	1
7-2/M82	1.44635	1
9-3-2/M82	1.70982	1

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	1.58038	0.277
IL2-6/WTpooled	0.89059	0.383
IL7-5/WTpooled	1.40213	1
IL7-3/WTpooled	1.11896	1
IL12-4/WTpooled	1.34361	0.557
IL1-4/WTpooled	1.36591	1
WT/WTpooled	1.04232	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	2.82559	1

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.36328	0.914
DC3000/delta hrp 6h	1.08755	1
DC3000/delta hrp 12h	1.05591	1
DC3000/delta hrp 24h	2.22366	0.264

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.58055
DC3000 delta B/DC3000 delta AB	2.04256	0.075

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	0.93521	1
Exp 36h	1.02438	1
Exp 60h	1.10249	1

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

hybridization	ratio	FDR (corrected p value)
self-self	1.14008	1
Var 0h	0.7519	1
Var 12h I row2-row1	0.86091	0.705
Var 12h NI row2-row1	1.52744	0.281
Var 36h I row2-row1	1.53525	0.601
Var 36h NI row2-row1	0.59539	0.45
Var 60h I row2-row1	1.23168	0.543
Var 60h NI row2-row1	0.55515	0.483
Time course 0hI-0hNI	1.204	0.867
Time course 12hI-12hNI	1.38393	0.256
Time course 36hI-36hNI	7.41895	0.004
Time course 60hI-60hNI	9.73975	0.009

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)	1.54379	0.268
transgenic ySAMdc/azygous control (breaker)	0.38057	0.119
transgenic ySAMdc/azygous control (red)	1.05834	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.98116	0.568

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.11831	0.238

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.63592	1
Manapal/WT (break)	0.89356	1
Manapal/WT (red)	0.32976	0.181