Tomato Functional Genomics Database (TFGD)

Expression of 1-1-6.2.10.1

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.04802	0.961
27DAP/17DAP	0.8077	0.577
39DAP/27DAP	1.35746	0.699
41DAP/39DAP	1.18194	0.649
42DAP/41DAP	1.35548	0.772
43DAP/42DAP	1.2335	0.993
47DAP/43DAP	0.6381	0.133
52DAP/47DAP	1.38499	0.731
57DAP/52DAP	2.05108	0.927

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.94749	0.432
17DAP/reference	1.2531	0.023
27DAP/reference	0.96921	0.642
39DAP/reference	1.09182	0.628
41DAP/reference	1.24794	0.047
42DAP/reference	0.89752	0.111
43DAP/reference	1.12166	0.425
47DAP/reference	0.88297	0.023
52DAP/reference	0.84661	0.177
57DAP/reference	0.92328	0.248

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.92342	0.245
27DAP/17DAP	0.98083	0.887
39DAP/27DAP	0.97293	0.784
41DAP/39DAP	1.19432	0.169
42DAP/41DAP	1.0466	0.763
43DAP/42DAP	0.97553	0.801
47DAP/43DAP	1.03993	0.914
52DAP/47DAP	0.88791	0.284
57DAP/52DAP	1.00575	1
57DAP/7DAP	1.01551	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.94646	0.224
17DAP/reference	1.11918	0.399
27DAP/reference	1.12304	0.16
39DAP/reference	0.8933	0.109
41DAP/reference	1.19447	0.28
42DAP/reference	1.18262	0.174
43DAP/reference	1.03377	0.788
47DAP/reference	1.17212	0.458
52DAP/reference	1.06099	0.459
57DAP/reference	1.38374	0.04

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.98168	0.72
17DAP/reference	1.02637	0.892
27DAP/reference	0.92095	0.393
39DAP/reference	0.78203	0.058
41DAP/reference	0.71611	0.031
42DAP/reference	0.84431	0.189
43DAP/reference	1.06166	0.875
47DAP/reference	1.0209	1
52DAP/reference	1.0551	0.667
57DAP/reference	1.0185	0.754

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.95704	0.455
17DAP/reference	1.01114	0.9
27DAP/reference	1.08096	0.467
39DAP/reference	1.01045	0.987
41DAP/reference	0.97971	0.618
42DAP/reference	0.85436	0.287
43DAP/reference	0.7939	0.11
47DAP/reference	1.10582	0.543
52DAP/reference	0.88545	0.455
57DAP/reference	0.67123	0.039

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.24923	0.966
26DAP/20DAP	1.12005	0.683
34DAP/26DAP	0.9416	0.861
51DAP/34DAP	0.751	0.063
52DAP/51DAP	0.87975	1
53DAP/52DAP	1.05306	0.858
55DAP/53DAP	1.08469	0.848
57DAP/55DAP	0.99068	0.855
62DAP/57DAP	1.2569	0.445
68DAP/62DAP	0.97903	0.834
68DAP/14DAP	N/A	N/A

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.96847	0.547

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	N/A	N/A
Mature Green Tomato/Ripe Tomato	3.50017
Immature Eggplant/Mature Eggplant	N/A	N/A
Ripe Pepper/Ripe Tomato	N/A	N/A
Mature Eggplant/Ripe Tomato	0.9282	1

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	N/A	N/A
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	N/A	N/A
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	N/A	N/A
6-2/M82	N/A	N/A
6-3/M82	1.13146
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	1.33966	0.277
IL2-6/WTpooled	0.92927	1
IL7-5/WTpooled	1.09551	1
IL7-3/WTpooled	1.20805	1
IL12-4/WTpooled	0.93023	1
IL1-4/WTpooled	1.24171	1
WT/WTpooled	0.95381	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	1.18267	0.222

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	N/A	N/A
DC3000/delta hrp 6h	0.92457
DC3000/delta hrp 12h	0.78868	1
DC3000/delta hrp 24h	0.7922	0.274

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.13612	0.29
DC3000 delta B/DC3000 delta AB	1.07996	0.389

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

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

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

hybridization	ratio	FDR (corrected p value)
self-self	0.99552	1
Var 0h	0.83864	0.933
Var 12h I row2-row1	1.06875	0.654
Var 12h NI row2-row1	0.92065	0.82
Var 36h I row2-row1	1.15045	0.908
Var 36h NI row2-row1	0.97958	0.852
Var 60h I row2-row1	1.17062	0.543
Var 60h NI row2-row1	1.02133	1
Time course 0hI-0hNI	0.94029	0.381
Time course 12hI-12hNI	1.00833	0.867
Time course 36hI-36hNI	1.1753	0.218
Time course 60hI-60hNI	1.23916	0.017

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)	0.94826	0.662
transgenic ySAMdc/azygous control (breaker)	0.60222	0.251
transgenic ySAMdc/azygous control (red)	1.12104	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.02411	0.287

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.84827	0.308

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.31077	0.307
Manapal/WT (break)	N/A	N/A
Manapal/WT (red)	1.15552	1