Tomato Functional Genomics Database (TFGD)

Expression of 1-1-2.3.11.21

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.94801	0.664
27DAP/17DAP	1.11554	0.845
39DAP/27DAP	0.93794	0.62
41DAP/39DAP	0.98429	0.879
42DAP/41DAP	0.95508	1
43DAP/42DAP	1.00563	0.937
47DAP/43DAP	1.22509	0.442
52DAP/47DAP	0.95931	0.848
57DAP/52DAP	1.04707	0.969

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.94898	0.217
17DAP/reference	0.99953	1
27DAP/reference	0.99192	0.741
39DAP/reference	0.96511	0.513
41DAP/reference	0.94751	0.542
42DAP/reference	0.97353	0.218
43DAP/reference	1.01693	0.705
47DAP/reference	0.9597	0.148
52DAP/reference	0.94305	0.319
57DAP/reference	0.99273	0.671

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.03046	0.749
27DAP/17DAP	0.98221	0.887
39DAP/27DAP	1.01377	0.779
41DAP/39DAP	1.01466	0.883
42DAP/41DAP	0.99281	0.882
43DAP/42DAP	1.04177	0.324
47DAP/43DAP	1.00221	0.973
52DAP/47DAP	1.00027	1
57DAP/52DAP	1.01457	0.957
57DAP/7DAP	1.0475	0.365

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.96737	0.108
17DAP/reference	1.07009	0.013
27DAP/reference	1.06875	0.007
39DAP/reference	1.05363	0.175
41DAP/reference	0.99099	0.512
42DAP/reference	1.08827	0.076
43DAP/reference	1.04555	0.14
47DAP/reference	0.96632	0.222
52DAP/reference	1.00245	1
57DAP/reference	1.00926	1

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.91286	0.176
17DAP/reference	0.93295	0.075
27DAP/reference	0.96866	0.423
39DAP/reference	0.94254	0.065
41DAP/reference	0.98319	0.505
42DAP/reference	0.94567	0.017
43DAP/reference	0.95448	0.37
47DAP/reference	0.95935	0.214
52DAP/reference	0.94483	0.086
57DAP/reference	0.97205	0.298

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.03824	0.56
17DAP/reference	0.95969	0.571
27DAP/reference	0.94046
39DAP/reference	1.03707	0.254
41DAP/reference	0.96918	0.754
42DAP/reference	0.96447	0.671
43DAP/reference	0.84995	0.019
47DAP/reference	0.97392	0.434
52DAP/reference	1.02128	0.837
57DAP/reference	0.93026	0.061

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.04703	0.786
26DAP/20DAP	0.93087	0.512
34DAP/26DAP	1.04294	1
51DAP/34DAP	0.98404	0.835
52DAP/51DAP	0.98509	1
53DAP/52DAP	1.08677	0.517
55DAP/53DAP	1.06162	0.719
57DAP/55DAP	1.06076	0.643
62DAP/57DAP	0.93912	0.871
68DAP/62DAP	1.05216	0.919
68DAP/14DAP	1.03284	1

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.92795	0.175

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	0.99753	0.863
Mature Green Tomato/Ripe Tomato	0.75503	0.119
Immature Eggplant/Mature Eggplant	1.3205	0.181
Ripe Pepper/Ripe Tomato	0.49671	0.224
Mature Eggplant/Ripe Tomato	0.35662	0.234

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	0.96539	0.961
1-1-2/M82	0.94539	1
12-2/M82	0.94443	0.955
12-4/M82	0.96193	1
1-3/M82	1.00841	1
2-1-1/M82	0.94435	0.92
2-1/M82	0.98084	1
2-6/M82	0.95463	1
3-2/M82	1.02857	1
4-1-1/M82	1.05589	1
4-1/M82	0.88047
4-3-2/M82	N/A	N/A
4-3/M82	1.037	1
5-3/M82	0.99887	1
6-2/M82	1.13035	1
6-3/M82	1.04434	1
7-1/M82	0.99418	1
7-2/M82	0.93021	0.796
9-3-2/M82	0.90932

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	1.18298	0.277
IL2-6/WTpooled	1.05083	1
IL7-5/WTpooled	0.51189
IL7-3/WTpooled	1.16678	1
IL12-4/WTpooled	1.11357	0.673
IL1-4/WTpooled	0.89431	0.476
WT/WTpooled	1.04237	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	1.0533	1

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.97944	1
DC3000/delta hrp 6h	1.13948	1
DC3000/delta hrp 12h	1.17005
DC3000/delta hrp 24h	1.01547	0.728

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.05431	0.208
DC3000 delta B/DC3000 delta AB	1.06671	0.449

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	N/A	N/A
Exp 36h	0.68772	0.406
Exp 60h	0.97058	0.994

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

hybridization	ratio	FDR (corrected p value)
self-self	1.00045	1
Var 0h	1.02858	1
Var 12h I row2-row1	1.12358	0.204
Var 12h NI row2-row1	0.91575	0.488
Var 36h I row2-row1	1.02928	1
Var 36h NI row2-row1	0.80939	0.482
Var 60h I row2-row1	1.09131	1
Var 60h NI row2-row1	1.17648	0.904
Time course 0hI-0hNI	1.07029	0.574
Time course 12hI-12hNI	1.03352	0.654
Time course 36hI-36hNI	1.00102	0.841
Time course 60hI-60hNI	0.84425	0.015

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)	0.89792	0.454
transgenic ySAMdc/azygous control (breaker)	1.13961	1
transgenic ySAMdc/azygous control (red)	1.23304	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.98963	0.371

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.96017	0.35

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.097	0.14
Manapal/WT (break)	1.11501	1
Manapal/WT (red)	0.90178	0.424