Tomato Functional Genomics Database (TFGD)

Expression of 1-1-1.4.8.4

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.17542	0.904
27DAP/17DAP	1.01444	1
39DAP/27DAP	1.02295	0.769
41DAP/39DAP	1.13182	0.822
42DAP/41DAP	1.36136	0.886
43DAP/42DAP	1.08482	0.937
47DAP/43DAP	1.07951	0.904
52DAP/47DAP	1.19731	0.915
57DAP/52DAP	0.93388	0.935

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.09014	0.611
17DAP/reference	1.42294	0.055
27DAP/reference	1.14256	0.696
39DAP/reference	1.21852	0.077
41DAP/reference	1.44915	0.014
42DAP/reference	1.10912	0.366
43DAP/reference	1.05398	0.518
47DAP/reference	1.10598	0.463
52DAP/reference	1.15311	0.548
57DAP/reference	0.99133	0.671

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.04237	0.801
27DAP/17DAP	1.24555	0.78
39DAP/27DAP	0.92364	0.692
41DAP/39DAP	1.0248	1
42DAP/41DAP	0.83832	0.353
43DAP/42DAP	0.94163	0.576
47DAP/43DAP	2.29104	0.359
52DAP/47DAP	0.91325	0.79
57DAP/52DAP	1.19541	0.659
57DAP/7DAP	1.45723	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.88213	0.246
17DAP/reference	0.94638	0.253
27DAP/reference	0.94297	0.215
39DAP/reference	0.86193	0.146
41DAP/reference	0.89366	0.271
42DAP/reference	0.86332	0.07
43DAP/reference	0.72127	0.016
47DAP/reference	1.05696	1
52DAP/reference	0.8361	0.031
57DAP/reference	0.88166	0.118

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.96547	0.706
17DAP/reference	1.28529	0.375
27DAP/reference	1.36501	0.195
39DAP/reference	1.10634	1
41DAP/reference	1.50123	0.01
42DAP/reference	1.30104	0.112
43DAP/reference	1.4015	0.121
47DAP/reference	1.15252	0.413
52DAP/reference	1.46924	0.106
57DAP/reference	1.54714	0.15

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.82288	0.05
17DAP/reference	0.91251	0.243
27DAP/reference	0.92978	0.27
39DAP/reference	0.96168	0.464
41DAP/reference	0.97352	0.56
42DAP/reference	0.89286	0.172
43DAP/reference	0.99189	0.639
47DAP/reference	1.19032	0.543
52DAP/reference	1.35039	0.566
57DAP/reference	1.27074	0.682

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.93632
26DAP/20DAP	0.82425	1
34DAP/26DAP	1.22501	1
51DAP/34DAP	0.61123	0.13
52DAP/51DAP	0.92448	1
53DAP/52DAP	0.9862	0.909
55DAP/53DAP	0.72257	0.445
57DAP/55DAP	1.25474	1
62DAP/57DAP	0.94371	0.871
68DAP/62DAP	1.85196	0.323
68DAP/14DAP	2.29719	0.034

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.07743	0.908

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	N/A	N/A
Mature Green Tomato/Ripe Tomato	1.29042	0.237
Immature Eggplant/Mature Eggplant	N/A	N/A
Ripe Pepper/Ripe Tomato	0.53972
Mature Eggplant/Ripe Tomato	0.77967

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.05557	0.486
1-1-2/M82	N/A	N/A
12-2/M82	N/A	N/A
12-4/M82	1.20456	0.694
1-3/M82	0.77539	0.335
2-1-1/M82	1.05745
2-1/M82	N/A	N/A
2-6/M82	1.03116	1
3-2/M82	N/A	N/A
4-1-1/M82	1.09822	1
4-1/M82	1.3832
4-3-2/M82	N/A	N/A
4-3/M82	N/A	N/A
5-3/M82	1.01227	1
6-2/M82	0.71869
6-3/M82	0.98397	1
7-1/M82	N/A	N/A
7-2/M82	0.9033	0.796
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	0.94032
IL7-5/WTpooled	N/A	N/A
IL7-3/WTpooled	1.02385	1
IL12-4/WTpooled	0.57627	0.581
IL1-4/WTpooled	1.21642	1
WT/WTpooled	0.9578	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	1.55856	0.699

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.96922	1
DC3000/delta hrp 6h	N/A	N/A
DC3000/delta hrp 12h	1.30413
DC3000/delta hrp 24h	1.14704	0.182

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.78896	0.042
DC3000 delta B/DC3000 delta AB	1.56181	0.083

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	N/A	N/A
Exp 36h	N/A	N/A
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	0.95327
Var 0h	0.99589	1
Var 12h I row2-row1	0.6809	0.353
Var 12h NI row2-row1	2.21043	0.34
Var 36h I row2-row1	1.06391	1
Var 36h NI row2-row1	1.16485	1
Var 60h I row2-row1	0.64718	0.285
Var 60h NI row2-row1	0.61767	0.304
Time course 0hI-0hNI	1.19984	0.262
Time course 12hI-12hNI	1.17528	0.554
Time course 36hI-36hNI	5.37989	0.004
Time course 60hI-60hNI	5.08509	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)	N/A	N/A
transgenic ySAMdc/azygous control (breaker)	N/A	N/A
transgenic ySAMdc/azygous control (red)	0.90874	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.02542	0.766

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	N/A	N/A

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.81456	0.14
Manapal/WT (break)	1.35589	1
Manapal/WT (red)	0.60638	0.181