Tomato Functional Genomics Database (TFGD)

Expression of 1-1-5.3.1.12

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.13787	0.681
27DAP/17DAP	1.14136	0.849
39DAP/27DAP	0.97002	0.7
41DAP/39DAP	0.99872	0.886
42DAP/41DAP	0.95924	1
43DAP/42DAP	1.00297	0.937
47DAP/43DAP	1.088	0.809
52DAP/47DAP	0.988	0.845
57DAP/52DAP	1.0796	0.902

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.97768	0.55
17DAP/reference	1.07942	0.22
27DAP/reference	1.01347	0.782
39DAP/reference	0.99628	0.975
41DAP/reference	0.95851	0.434
42DAP/reference	0.97566	0.295
43DAP/reference	1.03178	0.678
47DAP/reference	1.13194	0.052
52DAP/reference	0.9245	0.195
57DAP/reference	0.90516	0.051

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.07813	0.63
27DAP/17DAP	1.11768	0.909
39DAP/27DAP	0.93413	0.668
41DAP/39DAP	0.82146	0.246
42DAP/41DAP	1.1608	0.487
43DAP/42DAP	0.89926	0.482
47DAP/43DAP	0.95544	0.843
52DAP/47DAP	0.81684	0.316
57DAP/52DAP	1.05765	0.708
57DAP/7DAP	1.52769

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.19684	0.286
17DAP/reference	1.13182	0.477
27DAP/reference	1.00603	0.614
39DAP/reference	1.03061	1
41DAP/reference	0.93145	0.431
42DAP/reference	1.15315	0.405
43DAP/reference	1.04881	1
47DAP/reference	0.92468	0.383
52DAP/reference	1.09639	0.832
57DAP/reference	1.01456	0.748

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.07451	0.507
17DAP/reference	1.05344	0.406
27DAP/reference	1.12041	0.507
39DAP/reference	1.1053	0.377
41DAP/reference	1.02287	0.749
42DAP/reference	0.96874	0.482
43DAP/reference	0.96793	0.527
47DAP/reference	0.88289	0.126
52DAP/reference	0.94418	0.101
57DAP/reference	0.96431	0.408

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.88891	0.311
17DAP/reference	1.01176	0.934
27DAP/reference	0.98249	0.624
39DAP/reference	1.00493	0.987
41DAP/reference	0.9174	0.293
42DAP/reference	0.97293	0.671
43DAP/reference	1.31115	0.219
47DAP/reference	1.29642	0.044
52DAP/reference	0.89546	0.228
57DAP/reference	1.7653	0.037

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.0084	1
26DAP/20DAP	0.69334	0.512
34DAP/26DAP	0.80224	0.763
51DAP/34DAP	1.7262	0.535
52DAP/51DAP	1.16387	0.776
53DAP/52DAP	1.58835	0.307
55DAP/53DAP	1.2208	0.527
57DAP/55DAP	0.80791	0.294
62DAP/57DAP	0.9897	1
68DAP/62DAP	0.75305	0.025
68DAP/14DAP	1.18441	0.87

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.61752	0.14

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	1.21489	0.075
Mature Green Tomato/Ripe Tomato	1.64199	0.034
Immature Eggplant/Mature Eggplant	0.12177
Ripe Pepper/Ripe Tomato	0.96551	1
Mature Eggplant/Ripe Tomato	0.55582	1

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	N/A	N/A
1-1-2/M82	1.21644
12-2/M82	0.96337	1
12-4/M82	N/A	N/A
1-3/M82	0.49595
2-1-1/M82	0.41266
2-1/M82	N/A	N/A
2-6/M82	0.99085
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	N/A	N/A
4-3/M82	N/A	N/A
5-3/M82	N/A	N/A
6-2/M82	0.9699
6-3/M82	1.02639	1
7-1/M82	N/A	N/A
7-2/M82	N/A	N/A
9-3-2/M82	1.0056

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	N/A	N/A
IL2-6/WTpooled	N/A	N/A
IL7-5/WTpooled	N/A	N/A
IL7-3/WTpooled	0.50442	0.31
IL12-4/WTpooled	0.97684	1
IL1-4/WTpooled	1.16141
WT/WTpooled	0.94958	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	0.7832	0.341

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.02088	0.921
DC3000/delta hrp 6h	1.09786	1
DC3000/delta hrp 12h	1.11517	1
DC3000/delta hrp 24h	0.83278	0.1

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.02592
DC3000 delta B/DC3000 delta AB	1.0599	0.655

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	1.37514	1
Exp 36h	0.76898	0.661
Exp 60h	0.83	0.754

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

hybridization	ratio	FDR (corrected p value)
self-self	1.02548	1
Var 0h	1.01634	1
Var 12h I row2-row1	0.89468	0.514
Var 12h NI row2-row1	1.0876	1
Var 36h I row2-row1	0.9861	1
Var 36h NI row2-row1	0.84542	0.347
Var 60h I row2-row1	1.02569	1
Var 60h NI row2-row1	1.12957	0.904
Time course 0hI-0hNI	0.93176	0.478
Time course 12hI-12hNI	1.00399	0.876
Time course 36hI-36hNI	1.02238	0.513
Time course 60hI-60hNI	0.94733	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)	0.99024	0.409
transgenic ySAMdc/azygous control (breaker)	1.09354	1
transgenic ySAMdc/azygous control (red)	1.59279	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.01217	0.766

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	2.0093	0.237

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.77319	0.093
Manapal/WT (break)	1.7607	0.183
Manapal/WT (red)	1.49197	0.413