Tomato Functional Genomics Database (TFGD)

Expression of 1-1-5.2.14.21

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.06927	0.838
27DAP/17DAP	1.02213	1
39DAP/27DAP	0.79446	0.487
41DAP/39DAP	1.24571	0.387
42DAP/41DAP	0.96235	1
43DAP/42DAP	0.98874	0.931
47DAP/43DAP	1.09169	0.825
52DAP/47DAP	1.02858	0.976
57DAP/52DAP	1.03896	0.969

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.976	0.55
17DAP/reference	0.96143	0.278
27DAP/reference	0.96657	0.497
39DAP/reference	0.99737	0.991
41DAP/reference	1.00446	0.963
42DAP/reference	0.94368	0.081
43DAP/reference	0.96826	0.555
47DAP/reference	0.93636	0.019
52DAP/reference	0.958	0.371
57DAP/reference	0.97006	0.277

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.99593	0.847
27DAP/17DAP	0.97635	0.854
39DAP/27DAP	1.09938	0.519
41DAP/39DAP	0.99144	1
42DAP/41DAP	0.9865	0.84
43DAP/42DAP	0.98123	0.774
47DAP/43DAP	1.02008	0.884
52DAP/47DAP	0.99748	0.969
57DAP/52DAP	1.04596	0.688
57DAP/7DAP	1.18159	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.95627	0.246
17DAP/reference	1.04032	0.328
27DAP/reference	1.05426	0.371
39DAP/reference	0.95905	0.02
41DAP/reference	0.95684	0.259
42DAP/reference	0.9856	0.338
43DAP/reference	0.99255	0.637
47DAP/reference	0.95888	0.293
52DAP/reference	0.96083	0.278
57DAP/reference	0.98606	0.589

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.02383	0.66
17DAP/reference	0.96888	0.41
27DAP/reference	0.97467	0.519
39DAP/reference	0.95972	0.265
41DAP/reference	0.98522	0.557
42DAP/reference	0.94242	0.081
43DAP/reference	0.99858	0.863
47DAP/reference	0.94307	0.066
52DAP/reference	0.96671	0.156
57DAP/reference	1.04269	0.705

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.95156	0.127
17DAP/reference	0.96356	0.239
27DAP/reference	1.0498	0.284
39DAP/reference	1.0203	0.711
41DAP/reference	0.98995	0.682
42DAP/reference	0.99214	0.671
43DAP/reference	1.02821	0.7
47DAP/reference	0.93432	0.145
52DAP/reference	0.97404	0.582
57DAP/reference	0.86818	0.046

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.06633	0.966
26DAP/20DAP	1.05938	0.855
34DAP/26DAP	0.96509	0.811
51DAP/34DAP	1.03246	0.795
52DAP/51DAP	1.06463	0.377
53DAP/52DAP	0.96706	0.862
55DAP/53DAP	1.02171	0.991
57DAP/55DAP	1.12669	0.865
62DAP/57DAP	0.93216	0.681
68DAP/62DAP	1.06484	0.792
68DAP/14DAP	1.02122	0.762

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.15812	0.264

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	N/A	N/A
Mature Green Tomato/Ripe Tomato	1.17884	0.267
Immature Eggplant/Mature Eggplant	0.78805	0.062
Ripe Pepper/Ripe Tomato	N/A	N/A
Mature Eggplant/Ripe Tomato	N/A	N/A

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	0.98064	0.961
1-1-2/M82	0.99866	1
12-2/M82	0.98355	1
12-4/M82	1.07315	1
1-3/M82	0.98629	1
2-1-1/M82	1.04343	1
2-1/M82	N/A	N/A
2-6/M82	0.9331	0.421
3-2/M82	0.9727	1
4-1-1/M82	1.06654	1
4-1/M82	0.89548	1
4-3-2/M82	0.75436	0.458
4-3/M82	0.95219	1
5-3/M82	1.02679	1
6-2/M82	0.96503	1
6-3/M82	0.97457	1
7-1/M82	0.96461
7-2/M82	0.99406	1
9-3-2/M82	0.8141	0.355

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	N/A	N/A
IL2-6/WTpooled	0.91549	0.473
IL7-5/WTpooled	N/A	N/A
IL7-3/WTpooled	1.09986	1
IL12-4/WTpooled	1.06762	0.695
IL1-4/WTpooled	1.01331
WT/WTpooled	1.02923	0.686

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	3.61446	0.479

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.96376	1
DC3000/delta hrp 6h	0.84591	0.95
DC3000/delta hrp 12h	0.95783	1
DC3000/delta hrp 24h	1.03711	0.604

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.18511	0.053
DC3000 delta B/DC3000 delta AB	1.1223	0.298

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	0.96604	1
Exp 36h	1.32461	0.693
Exp 60h	1.24002	0.563

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

hybridization	ratio	FDR (corrected p value)
self-self	1.01065	1
Var 0h	1.23967	0.98
Var 12h I row2-row1	1.31752	0.224
Var 12h NI row2-row1	1.11503	1
Var 36h I row2-row1	1.19568	1
Var 36h NI row2-row1	0.87475	0.61
Var 60h I row2-row1	1.10899	1
Var 60h NI row2-row1	0.95833	1
Time course 0hI-0hNI	1.05123	1
Time course 12hI-12hNI	1.06702	0.72
Time course 36hI-36hNI	1.03545	0.881
Time course 60hI-60hNI	1.48741	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)	0.99378	0.931
transgenic ySAMdc/azygous control (breaker)	1.03096	1
transgenic ySAMdc/azygous control (red)	1.18895	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.98131	0.343

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.85881	0.238

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	2.0643	0.093
Manapal/WT (break)	2.06299	0.123
Manapal/WT (red)	1.14296	0.413