Tomato Functional Genomics Database (TFGD)

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Expression of 1-1-8.2.2.8

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.13136	0.838
27DAP/17DAP	0.93083	0.863
39DAP/27DAP	1.16455	0.75
41DAP/39DAP	1.31248	0.478
42DAP/41DAP	1.21471	0.712
43DAP/42DAP	1.06797	1
47DAP/43DAP	0.93096	0.696
52DAP/47DAP	1.00049	0.837
57DAP/52DAP	1.37919	0.348

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.92825	0.352
17DAP/reference	0.96879	0.474
27DAP/reference	0.97192	0.61
39DAP/reference	1.01439	0.842
41DAP/reference	0.83641	0.049
42DAP/reference	0.9125	0.05
43DAP/reference	1.02845	0.646
47DAP/reference	0.92141	0.098
52DAP/reference	1.17846	0.121
57DAP/reference	1.31642	0.009

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.07471	0.515
27DAP/17DAP	1.16168	0.339
39DAP/27DAP	0.92093	0.556
41DAP/39DAP	1.06153	0.909
42DAP/41DAP	1.01632	0.924
43DAP/42DAP	0.89854	0.073
47DAP/43DAP	1.10356	0.52
52DAP/47DAP	0.72371	0.156
57DAP/52DAP	0.90225	0.387
57DAP/7DAP	0.97973	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.93008	0.203
17DAP/reference	0.79435	0.021
27DAP/reference	0.85752	0.031
39DAP/reference	0.81304	0.018
41DAP/reference	0.88396	0.035
42DAP/reference	0.71944	0.021
43DAP/reference	0.6795	0.011
47DAP/reference	0.87675	0.222
52DAP/reference	0.71929	0.02
57DAP/reference	0.76388	0.006

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.01925	0.874
17DAP/reference	0.90223	0.26
27DAP/reference	0.87751	0.15
39DAP/reference	0.91841	0.235
41DAP/reference	0.88055	0.156
42DAP/reference	0.99911	0.655
43DAP/reference	0.97437	0.581
47DAP/reference	1.06571	0.498
52DAP/reference	1.05862	0.444
57DAP/reference	0.96661	0.488

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.90244	0.104
17DAP/reference	0.94312	0.381
27DAP/reference	0.84824	0.076
39DAP/reference	0.77806	0.012
41DAP/reference	0.83357	0.058
42DAP/reference	0.77949	0.032
43DAP/reference	0.81434	0.041
47DAP/reference	0.96036	0.434
52DAP/reference	0.8103	0.268
57DAP/reference	1.06668	0.92

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.93467	1
26DAP/20DAP	1.41094	0.39
34DAP/26DAP	0.94917	0.861
51DAP/34DAP	0.81881	0.188
52DAP/51DAP	0.99464	1
53DAP/52DAP	0.68858	0.07
55DAP/53DAP	0.85006	0.604
57DAP/55DAP	1.19713	0.841
62DAP/57DAP	N/A	N/A
68DAP/62DAP	1.61704	0.89
68DAP/14DAP	N/A	N/A

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.14294	0.162

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	1.54641	0.058
Mature Green Tomato/Ripe Tomato	1.32424	0.752
Immature Eggplant/Mature Eggplant	0.83994	0.808
Ripe Pepper/Ripe Tomato	1.03677	1
Mature Eggplant/Ripe Tomato	0.7946	1

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	0.58565	0.605
1-1-2/M82	0.60984	N/A
12-2/M82	0.84013	0.955
12-4/M82	0.48194	0.282
1-3/M82	0.90692	N/A
2-1-1/M82	0.5508	N/A
2-1/M82	0.90418	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	0.73263	0.339
4-3/M82	0.67641	0.72
5-3/M82	1.53163	0.572
6-2/M82	N/A	N/A
6-3/M82	1.17442	1
7-1/M82	N/A	N/A
7-2/M82	1.29877	1
9-3-2/M82	N/A	N/A

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	0.80973	1
IL2-6/WTpooled	N/A	N/A
IL7-5/WTpooled	N/A	N/A
IL7-3/WTpooled	N/A	N/A
IL12-4/WTpooled	N/A	N/A
IL1-4/WTpooled	0.94293	1
WT/WTpooled	1.28908	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	1.04709	1

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	1.04702	1
DC3000/delta hrp 12h	0.91623	1
DC3000/delta hrp 24h	0.93323	0.585

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	0.84812	0.044
DC3000 delta B/DC3000 delta AB	1.12462	0.714

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	0.89554	1
Exp 36h	1.62451	0.693
Exp 60h	1.32758	1

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

hybridization	ratio	FDR (corrected p value)
self-self	1.01547	1
Var 0h	1.4255	0.936
Var 12h I row2-row1	1.11594	0.736
Var 12h NI row2-row1	1.19217	0.649
Var 36h I row2-row1	1.21641	0.298
Var 36h NI row2-row1	0.79075	0.478
Var 60h I row2-row1	1.01459	1
Var 60h NI row2-row1	0.95717	1
Time course 0hI-0hNI	0.87925	0.24
Time course 12hI-12hNI	1.12682	0.317
Time course 36hI-36hNI	1.72141	0.012
Time course 60hI-60hNI	1.36395	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)	1.20524	0.297
transgenic ySAMdc/azygous control (breaker)	1.53954	0.248
transgenic ySAMdc/azygous control (red)	1.21536	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.14883	0.038

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.75061	0.238

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.07066	0.14
Manapal/WT (break)	1.10912	0.381
Manapal/WT (red)	1.04088	1