Tomato Functional Genomics Database (TFGD)

Expression of 1-1-3.1.8.1

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.02596	0.904
27DAP/17DAP	1.06731	0.872
39DAP/27DAP	1.06902	0.893
41DAP/39DAP	1.0084	1
42DAP/41DAP	1.12825	0.863
43DAP/42DAP	0.96353	0.906
47DAP/43DAP	1.07984	0.442
52DAP/47DAP	0.88134	0.673
57DAP/52DAP	0.96764	0.957

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.04544	0.303
17DAP/reference	1.04294	0.306
27DAP/reference	1.03215	0.509
39DAP/reference	0.98393	0.797
41DAP/reference	0.96064	0.667
42DAP/reference	1.01467	0.782
43DAP/reference	0.98892	0.745
47DAP/reference	1.00948	0.674
52DAP/reference	0.91214	0.079
57DAP/reference	0.84605	0.018

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.25392	0.056
27DAP/17DAP	0.8417	0.218
39DAP/27DAP	1.14793	0.209
41DAP/39DAP	0.96718	0.893
42DAP/41DAP	1.07382	0.415
43DAP/42DAP	1.07175	0.351
47DAP/43DAP	1.06413	0.674
52DAP/47DAP	0.88031	0.389
57DAP/52DAP	0.91444	0.428
57DAP/7DAP	1.19181	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.0249	0.91
17DAP/reference	0.81527	0.108
27DAP/reference	0.93732	0.325
39DAP/reference	1.19247	0.077
41DAP/reference	1.08278	0.325
42DAP/reference	0.97928	0.506
43DAP/reference	0.91642	0.166
47DAP/reference	0.96694	0.671
52DAP/reference	1.02814	0.886
57DAP/reference	1.26191	0.037

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.0143	0.863
17DAP/reference	1.0545	0.139
27DAP/reference	0.98428	0.576
39DAP/reference	1.08113	0.571
41DAP/reference	1.11168	0.672
42DAP/reference	1.01417	1
43DAP/reference	0.97091	0.62
47DAP/reference	1.08988	0.095
52DAP/reference	0.98908	0.537
57DAP/reference	1.03229	0.609

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.9123	0.268
17DAP/reference	1.11575	0.456
27DAP/reference	0.74285
39DAP/reference	0.82591	0.101
41DAP/reference	0.8863	0.119
42DAP/reference	1.10722	0.759
43DAP/reference	0.90108	0.281
47DAP/reference	1.00868	1
52DAP/reference	1.20589	0.428
57DAP/reference	1.16138	0.878

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.98272	1
26DAP/20DAP	0.97444	1
34DAP/26DAP	0.98908	0.998
51DAP/34DAP	0.89396	0.317
52DAP/51DAP	1.08616	0.313
53DAP/52DAP	0.99723	1
55DAP/53DAP	1.10118	0.634
57DAP/55DAP	1.31872	0.407
62DAP/57DAP	0.95207	0.871
68DAP/62DAP	0.98971	0.939
68DAP/14DAP	0.95253	1

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.1467	0.285

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	1.2807	0.287
Mature Green Tomato/Ripe Tomato	1.14765	0.036
Immature Eggplant/Mature Eggplant	0.98254	0.72
Ripe Pepper/Ripe Tomato	0.58088	1
Mature Eggplant/Ripe Tomato	1.01723	1

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.03301	1
1-1-2/M82	0.89036	1
12-2/M82	0.9269	0.955
12-4/M82	0.95817	1
1-3/M82	1.01936	1
2-1-1/M82	1.10089	0.764
2-1/M82	1.24776	1
2-6/M82	1.06287	0.695
3-2/M82	0.90383	1
4-1-1/M82	0.96514
4-1/M82	0.87021	0.665
4-3-2/M82	1.02545	1
4-3/M82	1.05185	1
5-3/M82	1.03817	0.572
6-2/M82	1.02362	1
6-3/M82	1.03295	1
7-1/M82	1.02299	0.87
7-2/M82	0.99567	1
9-3-2/M82	1.13688

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	1.19461	0.365
IL2-6/WTpooled	1.06776	1
IL7-5/WTpooled	1.02871	1
IL7-3/WTpooled	1.10431	1
IL12-4/WTpooled	0.7315	0.581
IL1-4/WTpooled	1.08653	1
WT/WTpooled	1.00473	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	1.08039	1

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.97142	1
DC3000/delta hrp 6h	1.05557	1
DC3000/delta hrp 12h	1.08026	1
DC3000/delta hrp 24h	1.1275	0.123

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.14002	0.384
DC3000 delta B/DC3000 delta AB	1.09548	0.372

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	1.0195	1
Exp 36h	1.20855	1
Exp 60h	1.0763	0.399

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

hybridization	ratio	FDR (corrected p value)
self-self	1.00283	1
Var 0h	1.30282	0.782
Var 12h I row2-row1	1.07039	0.348
Var 12h NI row2-row1	1.01011	1
Var 36h I row2-row1	1.00312	1
Var 36h NI row2-row1	0.9247	0.645
Var 60h I row2-row1	1.00998	1
Var 60h NI row2-row1	1.44713	0.904
Time course 0hI-0hNI	1.10353	0.344
Time course 12hI-12hNI	1.00499	0.892
Time course 36hI-36hNI	1.00467	1
Time course 60hI-60hNI	1.59852	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)	0.97367	0.789
transgenic ySAMdc/azygous control (breaker)	1.01775	1
transgenic ySAMdc/azygous control (red)	1.02329	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.93692	0.181

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.92119	0.268

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.81475	1
Manapal/WT (break)	0.7753	0.299
Manapal/WT (red)	0.8806	0.181