Tomato Functional Genomics Database (TFGD)

Expression of 1-1-3.2.19.5

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.17912	0.838
27DAP/17DAP	0.90187	0.753
39DAP/27DAP	1.08459	0.903
41DAP/39DAP	0.89917	0.545
42DAP/41DAP	1.16389	0.929
43DAP/42DAP	1.02272	0.937
47DAP/43DAP	1.13433	0.776
52DAP/47DAP	0.76718	0.461
57DAP/52DAP	1.20809	0.962

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.24044	0.071
17DAP/reference	1.31952	0.112
27DAP/reference	1.15487	0.457
39DAP/reference	1.13185	0.534
41DAP/reference	1.31206	0.036
42DAP/reference	1.13738	0.467
43DAP/reference	0.83694	0.051
47DAP/reference	1.05789	1
52DAP/reference	1.37528	0.045
57DAP/reference	1.09847	0.582

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.98354	0.75
27DAP/17DAP	1.02152	0.967
39DAP/27DAP	0.69459	0.075
41DAP/39DAP	0.93876	0.804
42DAP/41DAP	0.95215	0.63
43DAP/42DAP	0.99612	1
47DAP/43DAP	0.89783	0.332
52DAP/47DAP	1.06687	0.8
57DAP/52DAP	1.09612	0.444
57DAP/7DAP	0.63003	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.82566	0.077
17DAP/reference	0.85681	0.011
27DAP/reference	0.81352	0.01
39DAP/reference	0.82801	0.011
41DAP/reference	0.75856	0.019
42DAP/reference	0.773	0.011
43DAP/reference	0.73099	0.014
47DAP/reference	0.76008	0.079
52DAP/reference	0.74883	0.035
57DAP/reference	0.78247	0.009

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.72027	0.238
17DAP/reference	0.92159	0.399
27DAP/reference	0.73191	0.05
39DAP/reference	1.24839	0.155
41DAP/reference	0.88061	0.173
42DAP/reference	1.09548	0.951
43DAP/reference	0.83293	0.166
47DAP/reference	0.8458	0.141
52DAP/reference	0.90754	0.28
57DAP/reference	0.80459	0.099

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.86132	0.063
17DAP/reference	0.92954	0.322
27DAP/reference	0.84024	0.038
39DAP/reference	0.76865	0.008
41DAP/reference	0.87196	0.025
42DAP/reference	0.75405	0.016
43DAP/reference	0.83975	0.256
47DAP/reference	0.78223	0.269
52DAP/reference	0.60173	0.059
57DAP/reference	1.06384	1

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.23059	0.966
26DAP/20DAP	0.91991	0.512
34DAP/26DAP	1.09856	0.819
51DAP/34DAP	0.73277	0.073
52DAP/51DAP	1.23589	0.065
53DAP/52DAP	0.80158	0.112
55DAP/53DAP	1.16704	0.511
57DAP/55DAP	0.75411	0.149
62DAP/57DAP	0.89895	0.466
68DAP/62DAP	1.30741	0.626
68DAP/14DAP	0.58734

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.52632	0.021

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	N/A	N/A
Mature Green Tomato/Ripe Tomato	3.5666	0.015
Immature Eggplant/Mature Eggplant	N/A	N/A
Ripe Pepper/Ripe Tomato	0.87314
Mature Eggplant/Ripe Tomato	0.17348	0.234

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.05199	0.742
1-1-2/M82	0.97977	1
12-2/M82	1.06861	1
12-4/M82	0.98948	1
1-3/M82	0.87045
2-1-1/M82	1.12058	1
2-1/M82	1.50544
2-6/M82	1.01719	0.695
3-2/M82	1.07395
4-1-1/M82	1.09073
4-1/M82	1.06122
4-3-2/M82	0.98504
4-3/M82	1.07846	1
5-3/M82	1.03496	1
6-2/M82	1.01782	1
6-3/M82	1.00889
7-1/M82	1.09444
7-2/M82	0.98856	0.881
9-3-2/M82	0.85822

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	0.63422	0.243
IL2-6/WTpooled	0.96202	1
IL7-5/WTpooled	1.17989	0.792
IL7-3/WTpooled	1.12855
IL12-4/WTpooled	1.09448	0.785
IL1-4/WTpooled	0.72814	0.435
WT/WTpooled	0.99603	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	1.36301	1

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.08317	0.656
DC3000/delta hrp 6h	N/A	N/A
DC3000/delta hrp 12h	1.19165	1
DC3000/delta hrp 24h	0.98752	0.988

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	0.57398	0.023
DC3000 delta B/DC3000 delta AB	0.55034	0.02

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	0.97128	1
Var 0h	1.0395	1
Var 12h I row2-row1	0.71634	0.353
Var 12h NI row2-row1	0.938	0.82
Var 36h I row2-row1	0.95824	1
Var 36h NI row2-row1	1.20734	0.482
Var 60h I row2-row1	0.99636	1
Var 60h NI row2-row1	1.08712	0.904
Time course 0hI-0hNI	1.02275	1
Time course 12hI-12hNI	0.96917	0.799
Time course 36hI-36hNI	1.01799	1
Time course 60hI-60hNI	0.24915	0.006

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)	0.97177	0.614
transgenic ySAMdc/azygous control (breaker)	0.77239	0.49
transgenic ySAMdc/azygous control (red)	0.73882	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.03268	0.525

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	2.70168	0.237

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	N/A	N/A
Manapal/WT (break)	N/A	N/A
Manapal/WT (red)	0.93838	0.607