Tomato Functional Genomics Database (TFGD)

Expression of 1-1-5.4.9.14

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.86919	0.475
27DAP/17DAP	1.10919	0.849
39DAP/27DAP	1.13562	0.729
41DAP/39DAP	1.1151	0.657
42DAP/41DAP	1.04036	1
43DAP/42DAP	0.98256	0.925
47DAP/43DAP	1.24097	0.595
52DAP/47DAP	2.21147	0.596
57DAP/52DAP	0.93437	0.919

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.04982	0.735
17DAP/reference	1.09052	0.042
27DAP/reference	1.04053	0.457
39DAP/reference	1.07315	0.203
41DAP/reference	1.06393	0.451
42DAP/reference	0.99258	0.469
43DAP/reference	1.0654	0.678
47DAP/reference	0.9481	0.279
52DAP/reference	1.04554	0.878
57DAP/reference	0.81842	0.015

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.00984	0.975
27DAP/17DAP	1.02506	1
39DAP/27DAP	1.15951	0.275
41DAP/39DAP	1.05757	0.817
42DAP/41DAP	1.21114	0.06
43DAP/42DAP	1.06279	0.585
47DAP/43DAP	1.06759	0.563
52DAP/47DAP	1.04567	0.851
57DAP/52DAP	0.99476	0.852
57DAP/7DAP	1.49407	0.207

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.80816	0.082
17DAP/reference	0.8726	0.039
27DAP/reference	1.05288	0.974
39DAP/reference	0.78562	0.025
41DAP/reference	0.88287	0.139
42DAP/reference	0.75922	0.033
43DAP/reference	1.01631	1
47DAP/reference	1.02463	0.885
52DAP/reference	0.79913	0.066
57DAP/reference	0.97713	0.513

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.15131	0.384
17DAP/reference	1.11695	0.375
27DAP/reference	0.97733	0.537
39DAP/reference	1.02269	1
41DAP/reference	0.88641	0.089
42DAP/reference	0.86386	0.05
43DAP/reference	1.42563	0.011
47DAP/reference	0.91867	0.173
52DAP/reference	1.04779	1
57DAP/reference	1.10822	0.93

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.92656	0.057
17DAP/reference	0.9727	0.55
27DAP/reference	1.03755	0.871
39DAP/reference	1.01443	0.836
41DAP/reference	1.02156	1
42DAP/reference	0.94098	0.361
43DAP/reference	0.84905	0.15
47DAP/reference	0.95051	0.371
52DAP/reference	1.08931	0.876
57DAP/reference	0.81321	0.054

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.9848	1
26DAP/20DAP	0.85905	0.512
34DAP/26DAP	1.01837	1
51DAP/34DAP	1.03602	1
52DAP/51DAP	1.25769	0.288
53DAP/52DAP	0.99118	0.99
55DAP/53DAP	1.35675	0.46
57DAP/55DAP	2.01483	0.947
62DAP/57DAP	1.14311	0.393
68DAP/62DAP	0.89839	0.579
68DAP/14DAP	1.01188	1

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.45477	0.025

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	0.36891
Mature Green Tomato/Ripe Tomato	0.92388	0.446
Immature Eggplant/Mature Eggplant	N/A	N/A
Ripe Pepper/Ripe Tomato	1.16909	1
Mature Eggplant/Ripe Tomato	0.83087	1

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	0.95105	0.841
1-1-2/M82	0.90998	1
12-2/M82	1.02018	1
12-4/M82	0.89706	1
1-3/M82	1.17418	0.26
2-1-1/M82	1.23315	0.689
2-1/M82	1.49797
2-6/M82	1.05608	0.329
3-2/M82	0.91744	1
4-1-1/M82	1.08054	1
4-1/M82	N/A	N/A
4-3-2/M82	N/A	N/A
4-3/M82	0.73961	0.441
5-3/M82	1.16394	0.467
6-2/M82	1.07015
6-3/M82	1.40562
7-1/M82	0.81366	0.509
7-2/M82	1.0894	0.324
9-3-2/M82	1.18081

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	1.04792	1
IL2-6/WTpooled	0.68419	0.383
IL7-5/WTpooled	N/A	N/A
IL7-3/WTpooled	1.31913	0.362
IL12-4/WTpooled	0.98597	1
IL1-4/WTpooled	0.98054	1
WT/WTpooled	1.06224	0.89

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	1.24351	0.853

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.05613	0.921
DC3000/delta hrp 6h	1.02246	0.95
DC3000/delta hrp 12h	1.08694	1
DC3000/delta hrp 24h	1.22844	0.052

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.20073	0.333
DC3000 delta B/DC3000 delta AB	1.32008	0.192

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	1.06846	1
Exp 36h	1.04685	1
Exp 60h	1.13129	1

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

hybridization	ratio	FDR (corrected p value)
self-self	0.99736	1
Var 0h	1.01541	1
Var 12h I row2-row1	1.02412	0.736
Var 12h NI row2-row1	1.00528	1
Var 36h I row2-row1	1.09724	0.41
Var 36h NI row2-row1	0.85161	0.361
Var 60h I row2-row1	0.82966	0.439
Var 60h NI row2-row1	0.93826	0.572
Time course 0hI-0hNI	1.02152	0.764
Time course 12hI-12hNI	1.00897	0.836
Time course 36hI-36hNI	1.11825	0.513
Time course 60hI-60hNI	2.75065	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)	1.0581	0.264
transgenic ySAMdc/azygous control (breaker)	1.3332	0.178
transgenic ySAMdc/azygous control (red)	1.06085	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.17274	0.026

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.78784	0.238

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.26217	0.096
Manapal/WT (break)	0.97444	1
Manapal/WT (red)	1.06664	0.413