Tomato Functional Genomics Database (TFGD)

Expression of 1-1-4.2.13.6

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.46248	0.015
27DAP/17DAP	1.09618	0.902
39DAP/27DAP	1.12248	0.873
41DAP/39DAP	1.19393	0.363
42DAP/41DAP	0.9935	1
43DAP/42DAP	1.09192	1
47DAP/43DAP	0.96752	0.744
52DAP/47DAP	0.97485	0.799
57DAP/52DAP	0.9793	0.957

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.01323	1
17DAP/reference	0.92378	0.298
27DAP/reference	0.93749	0.327
39DAP/reference	0.87681	0.037
41DAP/reference	0.86695	0.018
42DAP/reference	0.86178	0.004
43DAP/reference	0.97362	0.653
47DAP/reference	0.85208	0.019
52DAP/reference	0.97254	0.427
57DAP/reference	1.11495	0.166

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.51764	0.041
27DAP/17DAP	1.03812	0.924
39DAP/27DAP	1.14063	0.483
41DAP/39DAP	1.01533	0.921
42DAP/41DAP	1.04025	0.984
43DAP/42DAP	1.11075	0.297
47DAP/43DAP	0.81577	0.29
52DAP/47DAP	1.04166	0.844
57DAP/52DAP	1.00528	0.862
57DAP/7DAP	0.75413	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.46579	0.039
17DAP/reference	1.0648	0.688
27DAP/reference	1.03115	0.664
39DAP/reference	1.03236	0.909
41DAP/reference	1.17343	0.147
42DAP/reference	1.00071	0.612
43DAP/reference	1.24067	0.01
47DAP/reference	1.0874	0.776
52DAP/reference	0.85766	0.115
57DAP/reference	1.00309	0.719

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.1431	0.597
17DAP/reference	0.76706	0.075
27DAP/reference	0.84569	0.1
39DAP/reference	0.94759	0.202
41DAP/reference	0.8953	0.141
42DAP/reference	0.83726	0.073
43DAP/reference	0.90441	0.212
47DAP/reference	0.87486	0.026
52DAP/reference	0.96841	0.259
57DAP/reference	0.89303	0.05

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.45092	0.063
17DAP/reference	0.99084	0.763
27DAP/reference	1.16768	0.149
39DAP/reference	1.08185	0.377
41DAP/reference	0.89933	0.331
42DAP/reference	0.97261	0.671
43DAP/reference	0.96209	0.503
47DAP/reference	0.84508	0.084
52DAP/reference	1.8371	0.428
57DAP/reference	0.97907	0.572

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.16973	0.916
26DAP/20DAP	1.4251	0.342
34DAP/26DAP	0.86054	0.741
51DAP/34DAP	0.61191	0.065
52DAP/51DAP	1.21827	0.396
53DAP/52DAP	1.0267	0.961
55DAP/53DAP	0.95931	0.686
57DAP/55DAP	1.17457	0.865
62DAP/57DAP	1.33938	0.047
68DAP/62DAP	1.67128	0.017
68DAP/14DAP	1.01223	1

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.80573	0.092

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	8.64526	0.058
Mature Green Tomato/Ripe Tomato	1.83415	0.363
Immature Eggplant/Mature Eggplant	0.72428	0.075
Ripe Pepper/Ripe Tomato	N/A	N/A
Mature Eggplant/Ripe Tomato	2.54224	0.26

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	N/A	N/A
1-1-2/M82	N/A	N/A
12-2/M82	N/A	N/A
12-4/M82	0.73382	0.282
1-3/M82	N/A	N/A
2-1-1/M82	N/A	N/A
2-1/M82	N/A	N/A
2-6/M82	0.57769
3-2/M82	N/A	N/A
4-1-1/M82	N/A	N/A
4-1/M82	N/A	N/A
4-3-2/M82	N/A	N/A
4-3/M82	N/A	N/A
5-3/M82	0.89275	1
6-2/M82	N/A	N/A
6-3/M82	N/A	N/A
7-1/M82	N/A	N/A
7-2/M82	N/A	N/A
9-3-2/M82	N/A	N/A

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	N/A	N/A
IL2-6/WTpooled	0.86015	1
IL7-5/WTpooled	N/A	N/A
IL7-3/WTpooled	1.26049	1
IL12-4/WTpooled	1.25766	0.673
IL1-4/WTpooled	0.83464
WT/WTpooled	0.98181	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	0.67957	0.497

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.17378	0.823
DC3000/delta hrp 6h	N/A	N/A
DC3000/delta hrp 12h	0.84812	1
DC3000/delta hrp 24h	1.97897	0.035

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.54983
DC3000 delta B/DC3000 delta AB	1.08948	0.453

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	0.90243	1
Exp 36h	N/A	N/A
Exp 60h	1.08901	0.205

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

hybridization	ratio	FDR (corrected p value)
self-self	1.01365	1
Var 0h	1.47088	0.782
Var 12h I row2-row1	1.16463	0.263
Var 12h NI row2-row1	0.99237	0.906
Var 36h I row2-row1	1.07396	1
Var 36h NI row2-row1	0.90183	0.549
Var 60h I row2-row1	1.05303	0.543
Var 60h NI row2-row1	1.13334	0.904
Time course 0hI-0hNI	0.94917	0.634
Time course 12hI-12hNI	1.00878	0.867
Time course 36hI-36hNI	0.85628	0.156
Time course 60hI-60hNI	1.06735	0.216

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)	1.32253	0.261
transgenic ySAMdc/azygous control (breaker)	1.33854	0.178
transgenic ySAMdc/azygous control (red)	1.33275	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.99216	0.712

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.99963	1

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.36522	0.09
Manapal/WT (break)	1.58551	0.381
Manapal/WT (red)	1.58691	0.222