Tomato Functional Genomics Database (TFGD)

Expression of 1-1-5.1.6.6

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.36094	0.575
27DAP/17DAP	1.77879	0.467
39DAP/27DAP	4.39302	0.025
41DAP/39DAP	2.66935	0.067
42DAP/41DAP	3.52674	0.018
43DAP/42DAP	2.37696	0.712
47DAP/43DAP	0.99145	0.847
52DAP/47DAP	0.50528	0.035
57DAP/52DAP	1.3879	0.849

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.01063	1
17DAP/reference	1.04798	0.282
27DAP/reference	1.0463	0.365
39DAP/reference	1.0959	0.197
41DAP/reference	1.07364	0.587
42DAP/reference	0.92731	0.04
43DAP/reference	1.0627	0.403
47DAP/reference	0.93911	0.055
52DAP/reference	0.87052	0.195
57DAP/reference	0.8762	0.147

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.07223	0.749
27DAP/17DAP	1.06014	0.909
39DAP/27DAP	7.17678	0.016
41DAP/39DAP	0.23027	0.013
42DAP/41DAP	3.81131	0.002
43DAP/42DAP	5.17524	0.013
47DAP/43DAP	0.90868	0.656
52DAP/47DAP	1.06372	0.962
57DAP/52DAP	1.22582	0.305
57DAP/7DAP	3.77058	0.365

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.12727	0.197
17DAP/reference	1.00389	1
27DAP/reference	1.04023	0.974
39DAP/reference	1.2437	0.114
41DAP/reference	1.26276	0.05
42DAP/reference	1.22971	0.174
43DAP/reference	1.15961	0.016
47DAP/reference	0.9293	0.293
52DAP/reference	1.11294	0.428
57DAP/reference	0.96887	0.396

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.01456	0.812
17DAP/reference	0.99278	0.693
27DAP/reference	0.87403	0.123
39DAP/reference	1.00322	0.702
41DAP/reference	0.91559	0.177
42DAP/reference	0.91275	0.189
43DAP/reference	1.00494	0.875
47DAP/reference	1.01068	0.965
52DAP/reference	0.98398	0.433
57DAP/reference	1.11051	0.08

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.94065	0.362
17DAP/reference	1.08608	0.62
27DAP/reference	0.9951	0.763
39DAP/reference	0.97058	0.544
41DAP/reference	0.99282	0.754
42DAP/reference	1.09991	0.893
43DAP/reference	0.93238	0.416
47DAP/reference	0.92107	0.24
52DAP/reference	1.14634	0.412
57DAP/reference	0.65657	0.034

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.00822	0.966
26DAP/20DAP	0.71737	0.205
34DAP/26DAP	1.0668	1
51DAP/34DAP	1.05394	0.988
52DAP/51DAP	1.0805	0.742
53DAP/52DAP	1.1317	0.319
55DAP/53DAP	1.15524	0.511
57DAP/55DAP	0.85248	0.391
62DAP/57DAP	1.7503
68DAP/62DAP	1.05583	0.8
68DAP/14DAP	1.00446

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	39.5432	0.014

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	1.03603
Mature Green Tomato/Ripe Tomato	0.08038	0.017
Immature Eggplant/Mature Eggplant	1.22897	0.105
Ripe Pepper/Ripe Tomato	0.27477
Mature Eggplant/Ripe Tomato	0.36857	1

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.15768	0.877
1-1-2/M82	1.07446	1
12-2/M82	1.18265	1
12-4/M82	1.15911	1
1-3/M82	2.09598	0.277
2-1-1/M82	0.94508	0.465
2-1/M82	0.98081	1
2-6/M82	0.95628	1
3-2/M82	1.1334	0.967
4-1-1/M82	0.85194	1
4-1/M82	0.94862
4-3-2/M82	1.031	1
4-3/M82	0.94522	1
5-3/M82	0.95866	1
6-2/M82	1.01817	1
6-3/M82	0.8948	1
7-1/M82	0.78567	0.452
7-2/M82	1.03335	1
9-3-2/M82	0.83429

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	N/A	N/A
IL2-6/WTpooled	0.82791	1
IL7-5/WTpooled	N/A	N/A
IL7-3/WTpooled	1.22472	0.362
IL12-4/WTpooled	0.98868	1
IL1-4/WTpooled	0.89269
WT/WTpooled	0.97815	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	2.01653	0.699

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.20849	0.692
DC3000/delta hrp 6h	0.98862	0.95
DC3000/delta hrp 12h	0.99048	1
DC3000/delta hrp 24h	0.78262	0.129

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.31479
DC3000 delta B/DC3000 delta AB	N/A	N/A

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	0.88339	1
Exp 36h	N/A	N/A
Exp 60h	1.31994	0.563

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

hybridization	ratio	FDR (corrected p value)
self-self	N/A	N/A
Var 0h	0.54562	0.252
Var 12h I row2-row1	N/A	N/A
Var 12h NI row2-row1	N/A	N/A
Var 36h I row2-row1	N/A	N/A
Var 36h NI row2-row1	N/A	N/A
Var 60h I row2-row1	N/A	N/A
Var 60h NI row2-row1	N/A	N/A
Time course 0hI-0hNI	N/A	N/A
Time course 12hI-12hNI	N/A	N/A
Time course 36hI-36hNI	N/A	N/A
Time course 60hI-60hNI	N/A	N/A

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)	1.75177	0.326
transgenic ySAMdc/azygous control (breaker)	0.54423	0.142
transgenic ySAMdc/azygous control (red)	0.94377	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.95929	0.353

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.0427	1

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.61199	1
Manapal/WT (break)	0.96495	1
Manapal/WT (red)	1.07486	1