Tomato Functional Genomics Database (TFGD)

Expression of 1-1-4.1.14.11

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.25831	0.463
27DAP/17DAP	1.05082	0.91
39DAP/27DAP	1.23738	0.533
41DAP/39DAP	1.07098	0.451
42DAP/41DAP	0.94312	1
43DAP/42DAP	0.83589	0.613
47DAP/43DAP	1.45947	0.429
52DAP/47DAP	1.09854	0.869
57DAP/52DAP	0.77066	0.662

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.02203	1
17DAP/reference	0.9803	0.701
27DAP/reference	1.03071	0.806
39DAP/reference	0.90534	0.103
41DAP/reference	1.00219	0.814
42DAP/reference	0.91158	0.025
43DAP/reference	0.9961	0.882
47DAP/reference	1.0113	1
52DAP/reference	1.03661	0.951
57DAP/reference	1.08697	0.122

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.03255	0.87
27DAP/17DAP	1.01126	0.98
39DAP/27DAP	0.71962	0.048
41DAP/39DAP	0.9411	0.764
42DAP/41DAP	1.03438	0.893
43DAP/42DAP	0.98906	0.902
47DAP/43DAP	0.99802	0.977
52DAP/47DAP	1.04223	0.856
57DAP/52DAP	1.01507	0.926
57DAP/7DAP	0.87653	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.21731	0.173
17DAP/reference	1.14147	0.07
27DAP/reference	1.14549	0.107
39DAP/reference	1.11993	0.282
41DAP/reference	1.11066	0.678
42DAP/reference	1.04665	1
43DAP/reference	0.97297	0.459
47DAP/reference	1.21863	0.158
52DAP/reference	0.95379	0.332
57DAP/reference	0.98438	0.53

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.9555	0.487
17DAP/reference	0.99731	0.747
27DAP/reference	0.94363	0.352
39DAP/reference	0.96474	0.404
41DAP/reference	1.04804	1
42DAP/reference	0.99143	0.594
43DAP/reference	0.93577	0.32
47DAP/reference	0.89819	0.099
52DAP/reference	1.11166	0.322
57DAP/reference	1.07287	0.688

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.18794	0.042
17DAP/reference	1.11168	0.258
27DAP/reference	1.18787	0.042
39DAP/reference	1.13378	0.016
41DAP/reference	1.23123	0.048
42DAP/reference	1.09093	0.648
43DAP/reference	0.98413	0.66
47DAP/reference	1.08071	0.309
52DAP/reference	1.20092	0.33
57DAP/reference	0.99955	0.73

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.17652	0.966
26DAP/20DAP	1.14692	0.806
34DAP/26DAP	0.99544	1
51DAP/34DAP	1.39577	0.524
52DAP/51DAP	0.86459	1
53DAP/52DAP	0.95161	0.776
55DAP/53DAP	1.30343	0.162
57DAP/55DAP	0.87488	0.479
62DAP/57DAP	0.96552	0.871
68DAP/62DAP	0.90228	0.668
68DAP/14DAP	0.57764	0.375

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.1003	0.466

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	N/A	N/A
Mature Green Tomato/Ripe Tomato	0.98841	0.835
Immature Eggplant/Mature Eggplant	N/A	N/A
Ripe Pepper/Ripe Tomato	0.25329	0.293
Mature Eggplant/Ripe Tomato	0.43319	1

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.26635	0.551
1-1-2/M82	1.48524
12-2/M82	1.07064
12-4/M82	1.41556	1
1-3/M82	0.75344
2-1-1/M82	1.23466	1
2-1/M82	N/A	N/A
2-6/M82	0.83127
3-2/M82	1.01215
4-1-1/M82	N/A	N/A
4-1/M82	2.68666
4-3-2/M82	N/A	N/A
4-3/M82	1.13911	1
5-3/M82	0.97491	1
6-2/M82	N/A	N/A
6-3/M82	1.10699	1
7-1/M82	N/A	N/A
7-2/M82	0.9207
9-3-2/M82	N/A	N/A

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	1.31835	0.277
IL2-6/WTpooled	0.71538	0.348
IL7-5/WTpooled	1.15188	0.792
IL7-3/WTpooled	1.2828	0.362
IL12-4/WTpooled	1.09287	0.646
IL1-4/WTpooled	1.01053	1
WT/WTpooled	0.97811	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	0.99868	1

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.18673	0.921
DC3000/delta hrp 6h	1.19046	1
DC3000/delta hrp 12h	1.06847	1
DC3000/delta hrp 24h	0.97998	0.91

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	0.59074	0.023
DC3000 delta B/DC3000 delta AB	0.72389	0.022

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	0.93258	1
Exp 36h	1.3846	0.693
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	1.0188	1
Var 0h	1.43838	0.98
Var 12h I row2-row1	0.78637	0.338
Var 12h NI row2-row1	1.03018	1
Var 36h I row2-row1	1.03859	1
Var 36h NI row2-row1	1.32176	0.482
Var 60h I row2-row1	0.88986	0.582
Var 60h NI row2-row1	1.01516	1
Time course 0hI-0hNI	1.04195	1
Time course 12hI-12hNI	0.94022	0.551
Time course 36hI-36hNI	0.81689	0.023
Time course 60hI-60hNI	0.17474	0.005

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)	0.97712	0.614
transgenic ySAMdc/azygous control (breaker)	0.95611	0.49
transgenic ySAMdc/azygous control (red)	0.922	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.04722	0.273

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.93844	0.59

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.80508	1
Manapal/WT (break)	0.86316	1
Manapal/WT (red)	0.93127	0.607