Tomato Functional Genomics Database (TFGD)

Expression of 1-1-8.4.13.1

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.52289	0.477
27DAP/17DAP	1.03683	0.967
39DAP/27DAP	0.87438	0.583
41DAP/39DAP	1.61023	0.494
42DAP/41DAP	1.15772	0.986
43DAP/42DAP	1.24249	0.69
47DAP/43DAP	1.2337	0.727
52DAP/47DAP	1.20131	0.739
57DAP/52DAP	1.79015	0.776

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.98932	0.679
17DAP/reference	0.91575	0.278
27DAP/reference	1.01346	0.867
39DAP/reference	1.01071	1
41DAP/reference	0.87198	0.114
42DAP/reference	0.81665	0.012
43DAP/reference	0.88544	0.135
47DAP/reference	0.94342	0.366
52DAP/reference	1.04583	1
57DAP/reference	1.11592	0.057

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.7884	0.141
27DAP/17DAP	0.9898	0.943
39DAP/27DAP	0.99271	0.932
41DAP/39DAP	1.31616	0.266
42DAP/41DAP	0.92613	0.495
43DAP/42DAP	0.92977	0.447
47DAP/43DAP	1.08272	0.822
52DAP/47DAP	0.78426	0.226
57DAP/52DAP	1.20309	0.374
57DAP/7DAP	0.73015	0.186

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.27301	0.193
17DAP/reference	1.34143	0.084
27DAP/reference	1.13943	0.16
39DAP/reference	1.09426	0.371
41DAP/reference	1.07843	0.836
42DAP/reference	1.1097	0.308
43DAP/reference	1.24026	0.05
47DAP/reference	1.17105	0.292
52DAP/reference	1.0602	0.428
57DAP/reference	1.22025	0.25

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.97323	0.669
17DAP/reference	0.76298	0.086
27DAP/reference	0.9461	0.381
39DAP/reference	0.94767	0.33
41DAP/reference	1.06493	0.587
42DAP/reference	0.9391	0.212
43DAP/reference	0.76603	0.07
47DAP/reference	0.85127	0.037
52DAP/reference	0.95125	0.38
57DAP/reference	0.68557	0.017

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.28512	0.034
17DAP/reference	0.96333	0.579
27DAP/reference	1.36566	0.031
39DAP/reference	1.15593	0.169
41DAP/reference	1.16016	0.257
42DAP/reference	1.33167	0.121
43DAP/reference	1.10286	0.625
47DAP/reference	0.88783	0.259
52DAP/reference	1.38063	0.138
57DAP/reference	1.33737	0.044

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.33377	0.496
26DAP/20DAP	0.98101	1
34DAP/26DAP	1.80765	0.19
51DAP/34DAP	1.11146	0.654
52DAP/51DAP	1.26244	0.103
53DAP/52DAP	0.86782	0.417
55DAP/53DAP	0.87048	0.604
57DAP/55DAP	0.92661	0.652
62DAP/57DAP	1.20013	0.723
68DAP/62DAP	1.04661	0.863
68DAP/14DAP	1.29463	0.311

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.07877	1

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	0.89669	0.458
Mature Green Tomato/Ripe Tomato	N/A	N/A
Immature Eggplant/Mature Eggplant	1.0218	1
Ripe Pepper/Ripe Tomato	2.10263	0.233
Mature Eggplant/Ripe Tomato	0.80033

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	N/A	N/A
1-1-2/M82	1.07469	1
12-2/M82	0.87848
12-4/M82	0.72139	0.358
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	0.91262
4-1-1/M82	1.08435
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	0.89302
6-2/M82	N/A	N/A
6-3/M82	1.08667	1
7-1/M82	N/A	N/A
7-2/M82	0.7854
9-3-2/M82	N/A	N/A

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	N/A	N/A
IL2-6/WTpooled	1.09987	0.659
IL7-5/WTpooled	N/A	N/A
IL7-3/WTpooled	0.88126	0.298
IL12-4/WTpooled	1.06621	0.891
IL1-4/WTpooled	1.01827
WT/WTpooled	1.09191	0.957

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	0.8863	0.975

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.15312	0.921
DC3000/delta hrp 6h	0.85648	0.95
DC3000/delta hrp 12h	0.84532	1
DC3000/delta hrp 24h	1.56418	0.032

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.05511	1
DC3000 delta B/DC3000 delta AB	1.46052

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	1.01285	1
Exp 36h	1.50115	0.409
Exp 60h	0.95464	0.855

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

hybridization	ratio	FDR (corrected p value)
self-self	1.06011	1
Var 0h	0.99376	1
Var 12h I row2-row1	1.08266	0.208
Var 12h NI row2-row1	1.23894	0.649
Var 36h I row2-row1	1.1069	0.291
Var 36h NI row2-row1	0.77249	0.61
Var 60h I row2-row1	0.86417	0.582
Var 60h NI row2-row1	0.9178	0.351
Time course 0hI-0hNI	1.04511	0.852
Time course 12hI-12hNI	1.46816	0.006
Time course 36hI-36hNI	1.74459	0.005
Time course 60hI-60hNI	2.73968	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)	0.93756	0.454
transgenic ySAMdc/azygous control (breaker)	0.99634	1
transgenic ySAMdc/azygous control (red)	1.05864	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.03411	0.687

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.9037	0.238

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.00111	1
Manapal/WT (break)	0.73006	1
Manapal/WT (red)	0.5306	0.181