Tomato Functional Genomics Database (TFGD)

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Expression of 1-1-7.3.8.7

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.82418	0.195
27DAP/17DAP	1.15622	0.881
39DAP/27DAP	1.09827	0.84
41DAP/39DAP	1.3078	0.408
42DAP/41DAP	0.9135	1
43DAP/42DAP	1.04679	0.932
47DAP/43DAP	0.95705	0.716
52DAP/47DAP	0.97373	0.842
57DAP/52DAP	1.09069	0.952

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.81269	0.039
17DAP/reference	0.93309	0.091
27DAP/reference	0.94363	0.304
39DAP/reference	1.00272	1
41DAP/reference	1.03053	0.855
42DAP/reference	0.78169	0.02
43DAP/reference	0.93899	0.41
47DAP/reference	0.96501	0.3
52DAP/reference	0.94183	0.31
57DAP/reference	1.06826	0.463

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.02141	0.947
27DAP/17DAP	0.88431	0.854
39DAP/27DAP	0.93443	0.607
41DAP/39DAP	1.17221	0.763
42DAP/41DAP	1.06174	0.773
43DAP/42DAP	1.14209	0.585
47DAP/43DAP	0.92441	0.506
52DAP/47DAP	1.06493	0.831
57DAP/52DAP	1.15673	0.745
57DAP/7DAP	1.37313	0.207

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.83137	0.104
17DAP/reference	0.92036	0.144
27DAP/reference	1.11027	0.012
39DAP/reference	1.02434	0.819
41DAP/reference	0.95095	0.271
42DAP/reference	1.09171	0.132
43DAP/reference	1.36221	0.009
47DAP/reference	1.32121	0.054
52DAP/reference	1.19696	0.212
57DAP/reference	1.26885	0.1

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.91558	0.115
17DAP/reference	0.94477	0.337
27DAP/reference	1.05991	1
39DAP/reference	0.81585	0.081
41DAP/reference	0.95597	0.315
42DAP/reference	0.89886	0.108
43DAP/reference	1.23543	0.083
47DAP/reference	1.00457	1
52DAP/reference	0.91986	0.121
57DAP/reference	0.9114	0.135

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.69939	0.026
17DAP/reference	0.97087	0.601
27DAP/reference	0.96954	0.539
39DAP/reference	0.92486	0.054
41DAP/reference	0.87659	0.086
42DAP/reference	0.95567	0.445
43DAP/reference	0.80001	0.021
47DAP/reference	1.0463	0.655
52DAP/reference	1.3556	0.237
57DAP/reference	0.95354	0.424

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.844	0.787
26DAP/20DAP	0.95331	1
34DAP/26DAP	1.03162	1
51DAP/34DAP	2.18357	0.314
52DAP/51DAP	0.88649	1
53DAP/52DAP	1.19885	0.662
55DAP/53DAP	0.99489	0.886
57DAP/55DAP	1.11509	0.906
62DAP/57DAP	0.60085	0.05
68DAP/62DAP	0.8843	0.378
68DAP/14DAP	1.7069	0.384

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.7087	0.042

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	0.70016	0.189
Mature Green Tomato/Ripe Tomato	0.88748	0.487
Immature Eggplant/Mature Eggplant	0.8288	0.086
Ripe Pepper/Ripe Tomato	1.32196	1
Mature Eggplant/Ripe Tomato	1.05798	1

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	0.94988	0.944
1-1-2/M82	1.10667	1
12-2/M82	0.88171	0.661
12-4/M82	1.14435	1
1-3/M82	1.29556	0.479
2-1-1/M82	0.77024	0.683
2-1/M82	0.44231	0.322
2-6/M82	0.84103	1
3-2/M82	0.93786	1
4-1-1/M82	0.96668	1
4-1/M82	0.63037	N/A
4-3-2/M82	0.90813	1
4-3/M82	0.75536	0.72
5-3/M82	1.09431	1
6-2/M82	0.98227	N/A
6-3/M82	1.00908	1
7-1/M82	N/A	N/A
7-2/M82	1.12883	N/A
9-3-2/M82	1.02627	1

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	N/A	N/A
IL2-6/WTpooled	1.01119	1
IL7-5/WTpooled	N/A	N/A
IL7-3/WTpooled	0.94072	0.31
IL12-4/WTpooled	1.10843	0.624
IL1-4/WTpooled	1.02567	1
WT/WTpooled	0.93293	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	0.94543	0.216

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.97941	1
DC3000/delta hrp 6h	0.98209	0.95
DC3000/delta hrp 12h	1.10187	1
DC3000/delta hrp 24h	0.76903	0.035

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	0.96814	0.955
DC3000 delta B/DC3000 delta AB	0.9439	0.575

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	0.90037	0.328
Exp 36h	0.91817	0.471
Exp 60h	1.10418	0.563

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

hybridization	ratio	FDR (corrected p value)
self-self	1.12083	1
Var 0h	N/A	N/A
Var 12h I row2-row1	0.87822	0.39
Var 12h NI row2-row1	1.01238	1
Var 36h I row2-row1	1.23564	0.309
Var 36h NI row2-row1	1.21584	0.482
Var 60h I row2-row1	1.09704	1
Var 60h NI row2-row1	0.89948	0.977
Time course 0hI-0hNI	1.01893	1
Time course 12hI-12hNI	0.98585	0.935
Time course 36hI-36hNI	1.13697	0.248
Time course 60hI-60hNI	0.94625	0.646

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)	1.10623	0.261
transgenic ySAMdc/azygous control (breaker)	0.95103	1
transgenic ySAMdc/azygous control (red)	1.04671	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.10071	0.071

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.00684	1

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.77855	0.172
Manapal/WT (break)	1.2856	0.381
Manapal/WT (red)	1.44919	0.222