Tomato Functional Genomics Database (TFGD)

Expression of 1-1-5.2.14.3

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.0578	0.798
27DAP/17DAP	1.04745	0.881
39DAP/27DAP	0.83278	0.414
41DAP/39DAP	1.15348	0.264
42DAP/41DAP	0.96482	1
43DAP/42DAP	1.03428	1
47DAP/43DAP	1.12173	0.576
52DAP/47DAP	0.91898	0.754
57DAP/52DAP	1.03733	0.962

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.13339	0.062
17DAP/reference	1.03553	0.21
27DAP/reference	1.04964	0.314
39DAP/reference	1.0184	0.57
41DAP/reference	1.08303	0.093
42DAP/reference	1.17936	0.02
43DAP/reference	1.08185	0.325
47DAP/reference	1.13426	0.008
52DAP/reference	1.15809	0.032
57DAP/reference	1.09103	0.147

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.98257	0.75
27DAP/17DAP	0.98794	0.878
39DAP/27DAP	0.99097	0.984
41DAP/39DAP	1.02476	0.876
42DAP/41DAP	0.97743	0.768
43DAP/42DAP	0.97331	0.665
47DAP/43DAP	1.01315	0.948
52DAP/47DAP	1.02734	0.915
57DAP/52DAP	1.07572	0.563
57DAP/7DAP	1.05186	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.94376	0.115
17DAP/reference	1.01174	0.971
27DAP/reference	0.9825	0.402
39DAP/reference	0.95705	0.17
41DAP/reference	0.94457	0.166
42DAP/reference	0.87316	0.01
43DAP/reference	1.00152	0.802
47DAP/reference	0.97156	0.671
52DAP/reference	0.91257	0.137
57DAP/reference	0.97564	0.353

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.15614	0.119
17DAP/reference	1.22599	0.065
27DAP/reference	1.25187	0.225
39DAP/reference	1.22043	0.077
41DAP/reference	1.38258	0.074
42DAP/reference	1.14025	0.274
43DAP/reference	1.23892	0.15
47DAP/reference	1.03796	0.527
52DAP/reference	1.26714	0.032
57DAP/reference	1.19267	0.15

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.96707	0.249
17DAP/reference	1.09286	0.522
27DAP/reference	0.99044	0.691
39DAP/reference	1.08869	0.182
41DAP/reference	1.01975	0.889
42DAP/reference	1.18027	0.333
43DAP/reference	1.15059	0.194
47DAP/reference	1.1528	0.099
52DAP/reference	0.96049	0.444
57DAP/reference	1.33	0.078

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.09313	0.966
26DAP/20DAP	0.96362	1
34DAP/26DAP	1.1486	0.542
51DAP/34DAP	0.90946	0.504
52DAP/51DAP	0.93369	1
53DAP/52DAP	1.04265	0.882
55DAP/53DAP	1.08091	0.861
57DAP/55DAP	1.08247	0.881
62DAP/57DAP	1.02134	1
68DAP/62DAP	0.82689	0.263
68DAP/14DAP	0.81856	1

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.91666	0.285

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	0.8552	0.323
Mature Green Tomato/Ripe Tomato	1.30456	0.437
Immature Eggplant/Mature Eggplant	1.19558	0.101
Ripe Pepper/Ripe Tomato	0.86632	1
Mature Eggplant/Ripe Tomato	0.76758	1

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.00666	1
1-1-2/M82	0.9051	0.958
12-2/M82	1.03593	1
12-4/M82	1.00098	1
1-3/M82	0.92084	0.501
2-1-1/M82	1.05752	1
2-1/M82	1.55664	1
2-6/M82	0.98158	1
3-2/M82	1.11034	0.461
4-1-1/M82	0.94518	0.926
4-1/M82	0.91725	0.665
4-3-2/M82	1.03557	1
4-3/M82	0.99093	1
5-3/M82	1.02817	1
6-2/M82	0.97642	1
6-3/M82	0.93207	0.982
7-1/M82	1.00642	1
7-2/M82	0.98739	1
9-3-2/M82	0.92709	0.449

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	0.80617
IL2-6/WTpooled	0.94197
IL7-5/WTpooled	0.67524
IL7-3/WTpooled	1.0309	1
IL12-4/WTpooled	0.98358	1
IL1-4/WTpooled	0.93639	0.834
WT/WTpooled	0.97889	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	0.85501	0.497

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.01059	1
DC3000/delta hrp 6h	1.03152	1
DC3000/delta hrp 12h	1.15304	1
DC3000/delta hrp 24h	0.9105	0.269

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.1611	0.052
DC3000 delta B/DC3000 delta AB	1.21447	0.198

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	0.93881	1
Exp 36h	0.96538	0.82
Exp 60h	1.01221	1

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

hybridization	ratio	FDR (corrected p value)
self-self	0.98474	1
Var 0h	0.86131	0.933
Var 12h I row2-row1	1.41853	0.544
Var 12h NI row2-row1	0.93072	0.906
Var 36h I row2-row1	1.33979	1
Var 36h NI row2-row1	0.98024	0.743
Var 60h I row2-row1	0.95949	0.439
Var 60h NI row2-row1	1.20195	0.904
Time course 0hI-0hNI	1.03585	0.867
Time course 12hI-12hNI	1.05078	0.773
Time course 36hI-36hNI	0.96971	0.533
Time course 60hI-60hNI	1.6926	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)	0.9574	0.409
transgenic ySAMdc/azygous control (breaker)	0.78227	0.15
transgenic ySAMdc/azygous control (red)	1.07537	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.95442	0.131

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.10224	0.277

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.00676	1
Manapal/WT (break)	0.91955	1
Manapal/WT (red)	0.84534	0.229