Tomato Functional Genomics Database (TFGD)

Expression of 1-1-5.2.9.15

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.99724	0.811
27DAP/17DAP	0.93915	0.899
39DAP/27DAP	0.87708	0.522
41DAP/39DAP	1.06532	1
42DAP/41DAP	1.02629	1
43DAP/42DAP	1.00184	0.94
47DAP/43DAP	1.11402	0.943
52DAP/47DAP	1.13898	0.982
57DAP/52DAP	1.03214	0.992

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.05807	0.441
17DAP/reference	0.98594	0.597
27DAP/reference	0.96986	0.295
39DAP/reference	0.97988	0.691
41DAP/reference	0.9807	0.667
42DAP/reference	1.01093	0.995
43DAP/reference	1.05373	0.287
47DAP/reference	1.02182	0.84
52DAP/reference	1.02904	0.8
57DAP/reference	0.94235	0.21

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.02847	0.687
27DAP/17DAP	1.04821	0.842
39DAP/27DAP	0.98983	0.953
41DAP/39DAP	1.01129	1
42DAP/41DAP	1.01401	1
43DAP/42DAP	0.98153	0.618
47DAP/43DAP	1.01015	0.93
52DAP/47DAP	0.98368	0.925
57DAP/52DAP	1.01758	0.899
57DAP/7DAP	0.96314	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.94335	0.071
17DAP/reference	0.95671	0.064
27DAP/reference	0.93466	0.035
39DAP/reference	1.0256	0.436
41DAP/reference	0.94757	0.107
42DAP/reference	0.93804	0.017
43DAP/reference	0.9636	0.266
47DAP/reference	0.94441	0.293
52DAP/reference	0.94915	0.179
57DAP/reference	1.08127	0.158

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.05243	0.373
17DAP/reference	1.05303	0.216
27DAP/reference	0.94622	0.438
39DAP/reference	1.08787	0.263
41DAP/reference	0.99089	0.557
42DAP/reference	1.01768	1
43DAP/reference	1.02668	0.704
47DAP/reference	0.91339	0.11
52DAP/reference	1.03596	0.417
57DAP/reference	1.01671	0.887

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.00065	1
17DAP/reference	0.98489	0.647
27DAP/reference	0.99565	0.763
39DAP/reference	1.03324	0.285
41DAP/reference	1.02385	0.674
42DAP/reference	0.96343	0.361
43DAP/reference	1.06888	0.264
47DAP/reference	0.9791	0.434
52DAP/reference	1.01052	0.952
57DAP/reference	0.88469	0.048

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.97785	1
26DAP/20DAP	0.98669	1
34DAP/26DAP	0.99424	1
51DAP/34DAP	1.00358	0.988
52DAP/51DAP	0.99923	1
53DAP/52DAP	1.18243	0.23
55DAP/53DAP	1.06131	0.834
57DAP/55DAP	0.95584	0.817
62DAP/57DAP	0.87457
68DAP/62DAP	1.10159	0.616
68DAP/14DAP	0.86732	0.121

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.07218	0.326

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	1.05945	0.063
Mature Green Tomato/Ripe Tomato	1.23514	0.632
Immature Eggplant/Mature Eggplant	1.19033	0.15
Ripe Pepper/Ripe Tomato	1.00442	1
Mature Eggplant/Ripe Tomato	1.43513	0.268

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	0.96573	0.944
1-1-2/M82	1.18555	1
12-2/M82	0.95543	0.955
12-4/M82	1.0051	1
1-3/M82	1.02163	1
2-1-1/M82	1.0485	1
2-1/M82	0.72627
2-6/M82	0.97772	1
3-2/M82	0.99877
4-1-1/M82	0.93773	0.962
4-1/M82	1.06668	1
4-3-2/M82	1.07281
4-3/M82	0.92851	0.72
5-3/M82	1.02417	1
6-2/M82	1.02082	1
6-3/M82	1.02801	1
7-1/M82	N/A	N/A
7-2/M82	0.98258	0.796
9-3-2/M82	0.96977	0.449

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	N/A	N/A
IL2-6/WTpooled	1.03838	0.788
IL7-5/WTpooled	N/A	N/A
IL7-3/WTpooled	1.07041	0.362
IL12-4/WTpooled	1.09455	0.538
IL1-4/WTpooled	0.98445
WT/WTpooled	0.97145	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	1.1602	0.853

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.06629	0.921
DC3000/delta hrp 6h	0.92634	0.95
DC3000/delta hrp 12h	0.98213	1
DC3000/delta hrp 24h	1.0211	0.76

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.24717	0.063
DC3000 delta B/DC3000 delta AB	1.26605	0.112

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	1.03003	1
Exp 36h	1.08505	1
Exp 60h	1.18401	0.563

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

hybridization	ratio	FDR (corrected p value)
self-self	1.01987	1
Var 0h	1.02408	1
Var 12h I row2-row1	1.18401	0.196
Var 12h NI row2-row1	1.04574	1
Var 36h I row2-row1	0.96804	1
Var 36h NI row2-row1	0.85714	0.421
Var 60h I row2-row1	0.9593	0.293
Var 60h NI row2-row1	0.9547	1
Time course 0hI-0hNI	1.05713	0.852
Time course 12hI-12hNI	1.05284	0.709
Time course 36hI-36hNI	1.20806	0.012
Time course 60hI-60hNI	2.36505	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)	1.05046	0.571
transgenic ySAMdc/azygous control (breaker)	0.92816	1
transgenic ySAMdc/azygous control (red)	1.22425	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.06094	0.194

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.8846	0.241

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.79599	0.172
Manapal/WT (break)	1.07151	1
Manapal/WT (red)	1.05814	0.413