Tomato Functional Genomics Database (TFGD)

Expression of 1-1-2.4.11.5

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.00442	0.997
27DAP/17DAP	1.05699	0.91
39DAP/27DAP	0.93499	0.507
41DAP/39DAP	1.14258	0.225
42DAP/41DAP	0.91501	1
43DAP/42DAP	1.00033	0.937
47DAP/43DAP	0.97176	0.884
52DAP/47DAP	1.09821	0.801
57DAP/52DAP	0.99058	0.983

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.00977	1
17DAP/reference	0.95325	0.111
27DAP/reference	1.00148	1
39DAP/reference	1.02218	0.236
41DAP/reference	1.02061	0.667
42DAP/reference	1.05465	0.005
43DAP/reference	1.02555	0.678
47DAP/reference	1.0578	0.065
52DAP/reference	1.10433	0.036
57DAP/reference	1.18082	0.013

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.05431	0.326
27DAP/17DAP	1.028	0.905
39DAP/27DAP	0.97654	0.795
41DAP/39DAP	0.99895	1
42DAP/41DAP	0.98519	0.819
43DAP/42DAP	1.01277	0.627
47DAP/43DAP	0.99615	0.99
52DAP/47DAP	1.00651	0.986
57DAP/52DAP	0.98509	0.73
57DAP/7DAP	0.99472	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.94892
17DAP/reference	0.93788	0.012
27DAP/reference	0.96361	0.062
39DAP/reference	1.04326	0.007
41DAP/reference	1.10384	0.057
42DAP/reference	1.10927	0.008
43DAP/reference	1.08889	0.212
47DAP/reference	0.95258	0.383
52DAP/reference	1.06543	0.352
57DAP/reference	1.13322	0.356

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.03673	0.443
17DAP/reference	1.09731	0.33
27DAP/reference	1.10402	0.31
39DAP/reference	0.99977	0.745
41DAP/reference	0.98109	0.432
42DAP/reference	1.05396	0.267
43DAP/reference	1.04245	0.343
47DAP/reference	1.0359	0.24
52DAP/reference	0.98682	0.5
57DAP/reference	1.03199	0.609

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.92699	0.044
17DAP/reference	0.9887	0.668
27DAP/reference	1.00095	1
39DAP/reference	1.04767	0.175
41DAP/reference	0.97305	0.512
42DAP/reference	0.94988	0.049
43DAP/reference	0.97288	0.398
47DAP/reference	0.94798	0.215
52DAP/reference	1.00863	0.965
57DAP/reference	1.04329	0.539

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.05613	0.786
26DAP/20DAP	1.01033	1
34DAP/26DAP	1.00351	1
51DAP/34DAP	1.03873	0.73
52DAP/51DAP	0.96989	1
53DAP/52DAP	N/A	N/A
55DAP/53DAP	1.02535
57DAP/55DAP	0.94986	0.817
62DAP/57DAP	1.05822	0.767
68DAP/62DAP	1.08886	0.747
68DAP/14DAP	1.20919	0.125

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.04621	0.246

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	7.03931
Mature Green Tomato/Ripe Tomato	0.94951	0.569
Immature Eggplant/Mature Eggplant	1.14786	0.485
Ripe Pepper/Ripe Tomato	0.65727	0.293
Mature Eggplant/Ripe Tomato	0.39156	0.234

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	0.93815	0.934
1-1-2/M82	0.95142	0.958
12-2/M82	0.97862	0.955
12-4/M82	0.9361	1
1-3/M82	1.09086	0.277
2-1-1/M82	1.10096	1
2-1/M82	N/A	N/A
2-6/M82	0.99311	1
3-2/M82	0.97018	1
4-1-1/M82	1.03562	1
4-1/M82	0.78187	1
4-3-2/M82	0.87309	1
4-3/M82	0.97787	1
5-3/M82	0.99389	1
6-2/M82	1.01278	1
6-3/M82	1.00372	1
7-1/M82	0.98575	1
7-2/M82	0.93715	0.599
9-3-2/M82	0.86618	1

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	0.96444	1
IL2-6/WTpooled	0.86076	0.383
IL7-5/WTpooled	0.59899	1
IL7-3/WTpooled	0.93018	0.418
IL12-4/WTpooled	1.22948	0.646
IL1-4/WTpooled	1.14716	0.426
WT/WTpooled	1.02515	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	1.12907	0.479

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.12289	0.692
DC3000/delta hrp 6h	0.97191	0.95
DC3000/delta hrp 12h	1.00863	1
DC3000/delta hrp 24h	1.0102	0.76

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.06724	0.355
DC3000 delta B/DC3000 delta AB	1.03559	0.558

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	1.07167	1
Exp 36h	1.30069	0.409
Exp 60h	1.14823	0.563

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

hybridization	ratio	FDR (corrected p value)
self-self	0.98848	1
Var 0h	0.42699	0.933
Var 12h I row2-row1	1.14612	0.263
Var 12h NI row2-row1	0.99389	1
Var 36h I row2-row1	0.83187	1
Var 36h NI row2-row1	1.27342	1
Var 60h I row2-row1	1.15515	1
Var 60h NI row2-row1	1.04275	1
Time course 0hI-0hNI	1.05695	0.852
Time course 12hI-12hNI	1.02372	0.842
Time course 36hI-36hNI	0.97528	0.54
Time course 60hI-60hNI	1.29349	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)	1.13139	0.408
transgenic ySAMdc/azygous control (breaker)	1.09048	1
transgenic ySAMdc/azygous control (red)	0.94424	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.99216	0.568

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.26607	0.277

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.77166	0.172
Manapal/WT (break)	0.64185	0.299
Manapal/WT (red)	0.90672	0.36